Thu Sep 18 06:39:35 UTC 2025 I: starting to build coot/experimental/arm64 on jenkins on '2025-09-18 06:39' Thu Sep 18 06:39:35 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_3/116351/console.log Thu Sep 18 06:39:35 UTC 2025 I: Downloading source for experimental/coot=1.1.18+dfsg-1 --2025-09-18 06:39:35-- http://cdn-fastly.deb.debian.org/debian/pool/main/c/coot/coot_1.1.18%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2972 (2.9K) [text/prs.lines.tag] Saving to: ‘coot_1.1.18+dfsg-1.dsc’ 0K .. 100% 353M=0s 2025-09-18 06:39:35 (353 MB/s) - ‘coot_1.1.18+dfsg-1.dsc’ saved [2972/2972] Thu Sep 18 06:39:35 UTC 2025 I: coot_1.1.18+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: coot Binary: coot, coot-data, coot-doc, libcootapi-dev, libcootapi1.1 Architecture: any all Version: 1.1.18+dfsg-1 Maintainer: Debian Science Maintainers Uploaders: Morten Kjeldgaard , Picca Frédéric-Emmanuel , Andrius Merkys , Alex Myczko , Homepage: https://github.com/pemsley/coot Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/science-team/coot Vcs-Git: https://salsa.debian.org/science-team/coot.git Testsuite: autopkgtest Build-Depends: bc, cmake, debhelper-compat (= 13), dh-sequence-python3, gemmi, gemmi-dev, ghostscript, imagemagick | graphicsmagick-imagemagick-compat, libasound2-dev, libblas-dev, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-system-dev, libboost-thread-dev, libcairo-dev, libccp4-data, libclipper-dev, libcoordgen-dev, libcurl4-gnutls-dev | libcurl-dev, libdw-dev, libeigen3-dev, libelf-dev, libgl-dev, libglib2.0-dev, libglm-dev, libgsl-dev, libgtkmm-4.0-dev, libmaeparser-dev, libmmdb2-dev, libpng-dev, libpython3-dev, librdkit-dev, libsqlite3-dev, libssm-dev, libvorbis-dev, nanobind-dev, python-gi-dev, python3-rdkit, python3-requests, python3-setuptools, sharutils, swig, tao-pegtl-dev Package-List: coot deb science optional arch=any coot-data deb science optional arch=all coot-doc deb science optional arch=all libcootapi-dev deb libdevel optional arch=any libcootapi1.1 deb libs optional arch=any Checksums-Sha1: 65891770ff1fc4753bb733319d422e8426b32423 97737320 coot_1.1.18+dfsg.orig.tar.xz dce87d1a4aa037446596e6afde3c535db785d152 54248 coot_1.1.18+dfsg-1.debian.tar.xz Checksums-Sha256: a02e27d43fa21460a88f22afb13cfdf97feec7c0a11f59d49232c72ea5181c92 97737320 coot_1.1.18+dfsg.orig.tar.xz a5b9dfc15cdcf22e9b5ab35300166fd11196a64667c5063eb00054af524c9714 54248 coot_1.1.18+dfsg-1.debian.tar.xz Files: 15056a721c9bed21234d6f1ed18adfa3 97737320 coot_1.1.18+dfsg.orig.tar.xz f7d807f5aad276d8e530167a5b88320f 54248 coot_1.1.18+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCAAdFiEEtgob82PcExn/Co6JEWhSvN91FcAFAmjJSOUACgkQEWhSvN91 FcCPYw//TQCz4FAbcQt71nEyWQBSIbh0DvZekqXC/UrjLuCKA55nT/f10zJjXOD5 LQ9IhOrK4e1dD4mPGD6gxnGtiQLLFJoIhMRpWzNJ9MlqVKP/rcBwMigSV4aTiRRQ 97EWyn+/E/Xco4+INep/F9hz5CU9BNTKySU6iXQK+lTxk8MvV4sbsUYLE+4O69i6 1Lp19LVUiu4vcg8b9/YpNLERlejc+mYxVAkDpfT8YFRA6MF9I8riyohZDwtGgLVF ALfnNTCOW/UVFDU+iQ7Ed0V/k/Dcd1biKXxbmLn7/kvKJFR3cuMXdUU6JbD/J1OI zbaqKw8cEicCiwnXiqKNmmaNxKDhaJIP4vgeAhuw1frK2Fwry0UD80tRhK7A2VVi a6CPRtHCdO2u5UGJrypuKstchVPoYui7kC6pU156vh0IWQrwWHk9PRAVRqni/KIm D1PNfY2CA2XvhJo7+5TLHOdJ9niUfRy42U98OgsvIQzF465xtkVEL0iJcrCrBmRa 4XtYS4LosY2O4TUsAP0+Src1H+Smz/b7CEmGPvAAsCUkeGIRZ3g7NRQBn3U2xYnI rcG7D7fSf516USXSwO9C2Q+DTQt9Q64gfJ417OJMLqNw1aVMgmclgER8fWqewrxu essD5AnjIi5TARATMI5rizPcy0TLg/BaTd2PsIqfla9mvkZo1yc= =vWom -----END PGP SIGNATURE----- Thu Sep 18 06:39:35 UTC 2025 I: Checking whether the package is not for us Thu Sep 18 06:39:35 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Thu Sep 18 06:39:35 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Thu Sep 18 07:10:59 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Oct 21 01:02:38 -12 2026 I: pbuilder-time-stamp: 1792587758 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/experimental-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [coot_1.1.18+dfsg-1.dsc] I: copying [./coot_1.1.18+dfsg.orig.tar.xz] I: copying [./coot_1.1.18+dfsg-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./coot_1.1.18+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting coot in coot-1.1.18+dfsg dpkg-source: info: unpacking coot_1.1.18+dfsg.orig.tar.xz dpkg-source: info: unpacking coot_1.1.18+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying drop-nonexistent-RDKit-libraries.patch dpkg-source: info: applying no-RPATH.patch dpkg-source: info: applying SyntaxWarning.patch dpkg-source: info: applying fonts-gone dpkg-source: info: applying without-fonts I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/543850/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='experimental' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='31c543d3cd904722b0e944639e0ab27e' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='543850' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.khw0qOGg/pbuilderrc_QlCv --distribution experimental --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.khw0qOGg/b1 --logfile b1/build.log coot_1.1.18+dfsg-1.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/543850/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: bc, cmake, debhelper-compat (= 13), dh-sequence-python3, gemmi, gemmi-dev, ghostscript, imagemagick | graphicsmagick-imagemagick-compat, libasound2-dev, libblas-dev, libboost-dev, libboost-iostreams-dev, libboost-python-dev, libboost-system-dev, libboost-thread-dev, libcairo-dev, libccp4-data, libclipper-dev, libcoordgen-dev, libcurl4-gnutls-dev | libcurl-dev, libdw-dev, libeigen3-dev, libelf-dev, libgl-dev, libglib2.0-dev, libglm-dev, libgsl-dev, libgtkmm-4.0-dev, libmaeparser-dev, libmmdb2-dev, libpng-dev, libpython3-dev, librdkit-dev, libsqlite3-dev, libssm-dev, libvorbis-dev, nanobind-dev, python-gi-dev, python3-rdkit, python3-requests, python3-setuptools, sharutils, swig, tao-pegtl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20020 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on bc; however: Package bc is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on gemmi; however: Package gemmi is not installed. pbuilder-satisfydepends-dummy depends on gemmi-dev; however: Package gemmi-dev is not installed. pbuilder-satisfydepends-dummy depends on ghostscript; however: Package ghostscript is not installed. pbuilder-satisfydepends-dummy depends on imagemagick | graphicsmagick-imagemagick-compat; however: Package imagemagick is not installed. Package graphicsmagick-imagemagick-compat is not installed. pbuilder-satisfydepends-dummy depends on libasound2-dev; however: Package libasound2-dev is not installed. pbuilder-satisfydepends-dummy depends on libblas-dev; however: Package libblas-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-iostreams-dev; however: Package libboost-iostreams-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-python-dev; however: Package libboost-python-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-system-dev; however: Package libboost-system-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-thread-dev; however: Package libboost-thread-dev is not installed. pbuilder-satisfydepends-dummy depends on libcairo-dev; however: Package libcairo-dev is not installed. pbuilder-satisfydepends-dummy depends on libccp4-data; however: Package libccp4-data is not installed. pbuilder-satisfydepends-dummy depends on libclipper-dev; however: Package libclipper-dev is not installed. pbuilder-satisfydepends-dummy depends on libcoordgen-dev; however: Package libcoordgen-dev is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-gnutls-dev | libcurl-dev; however: Package libcurl4-gnutls-dev is not installed. Package libcurl-dev is not installed. pbuilder-satisfydepends-dummy depends on libdw-dev; however: Package libdw-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libelf-dev; however: Package libelf-dev is not installed. pbuilder-satisfydepends-dummy depends on libgl-dev; however: Package libgl-dev is not installed. pbuilder-satisfydepends-dummy depends on libglib2.0-dev; however: Package libglib2.0-dev is not installed. pbuilder-satisfydepends-dummy depends on libglm-dev; however: Package libglm-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. pbuilder-satisfydepends-dummy depends on libgtkmm-4.0-dev; however: Package libgtkmm-4.0-dev is not installed. pbuilder-satisfydepends-dummy depends on libmaeparser-dev; however: Package libmaeparser-dev is not installed. pbuilder-satisfydepends-dummy depends on libmmdb2-dev; however: Package libmmdb2-dev is not installed. pbuilder-satisfydepends-dummy depends on libpng-dev; however: Package libpng-dev is not installed. pbuilder-satisfydepends-dummy depends on libpython3-dev; however: Package libpython3-dev is not installed. pbuilder-satisfydepends-dummy depends on librdkit-dev; however: Package librdkit-dev is not installed. pbuilder-satisfydepends-dummy depends on libsqlite3-dev; however: Package libsqlite3-dev is not installed. pbuilder-satisfydepends-dummy depends on libssm-dev; however: Package libssm-dev is not installed. pbuilder-satisfydepends-dummy depends on libvorbis-dev; however: Package libvorbis-dev is not installed. pbuilder-satisfydepends-dummy depends on nanobind-dev; however: Package nanobind-dev is not installed. pbuilder-satisfydepends-dummy depends on python-gi-dev; however: Package python-gi-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-rdkit; however: Package python3-rdkit is not installed. pbuilder-satisfydepends-dummy depends on python3-requests; however: Package python3-requests is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on sharutils; however: Package sharutils is not installed. pbuilder-satisfydepends-dummy depends on swig; however: Package swig is not installed. pbuilder-satisfydepends-dummy depends on tao-pegtl-dev; however: Package tao-pegtl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bc{a} bsdextrautils{a} ca-certificates{a} cmake{a} cmake-data{a} comerr-dev{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} fftw-dev{a} fftw2{a} file{a} fontconfig{a} fontconfig-config{a} fonts-freefont-ttf{a} fonts-urw-base35{a} gcc-14-base{a} gemmi{a} gemmi-dev{a} gettext{a} gettext-base{a} ghostscript{a} gir1.2-freedesktop{a} gir1.2-freedesktop-dev{a} gir1.2-gdkpixbuf-2.0{a} gir1.2-girepository-2.0{a} gir1.2-glib-2.0{a} gir1.2-glib-2.0-dev{a} gir1.2-graphene-1.0{a} gir1.2-gtk-4.0{a} gir1.2-harfbuzz-0.0{a} gir1.2-pango-1.0{a} girepository-tools{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} ibverbs-providers{a} icu-devtools{a} imagemagick{a} imagemagick-7-common{a} imagemagick-7.q16{a} intltool-debian{a} iso-codes{a} krb5-multidev{a} libamd-comgr2{a} libamdhip64-5{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasound2-data{a} libasound2-dev{a} libasound2t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libblas-dev{a} libblas3{a} libblkid-dev{a} libboost-atomic1.83-dev{a} libboost-atomic1.83.0{a} libboost-chrono1.83-dev{a} libboost-chrono1.83.0t64{a} libboost-date-time1.83-dev{a} libboost-date-time1.83.0{a} libboost-dev{a} libboost-iostreams-dev{a} libboost-iostreams1.83-dev{a} libboost-numpy1.83.0{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-serialization1.83-dev{a} libboost-serialization1.83.0{a} libboost-system-dev{a} libboost-system1.83-dev{a} libboost-system1.83.0{a} libboost-thread-dev{a} libboost-thread1.83-dev{a} libboost-thread1.83.0{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo-gobject2{a} libcairo-script-interpreter2{a} libcairo2{a} libcairo2-dev{a} libcairomm-1.16-1{a} libcairomm-1.16-dev{a} libcap2-bin{a} libccp4-data{a} libccp4-dev{a} libccp4c0t64{a} libccp4f0t64{a} libclipper-dev{a} libclipper2{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcoordgen-dev{a} libcoordgen3{a} libcups2t64{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdatrie-dev{a} libdatrie1{a} libdav1d7{a} libdbus-1-3{a} libdconf1{a} libde265-0{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm2{a} libdw-dev{a} libdw1t64{a} libedit2{a} libegl-dev{a} libegl-mesa0{a} libegl1{a} libegl1-mesa-dev{a} libeigen3-dev{a} libelf-dev{a} libelf1t64{a} libepoxy-dev{a} libepoxy0{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libffi-dev{a} libffi8{a} libfftw3-double3{a} libfile-stripnondeterminism-perl{a} libfontconfig-dev{a} libfontconfig1{a} libfontenc1{a} libfreetype-dev{a} libfreetype6{a} libfribidi-dev{a} libfribidi0{a} libgbm1{a} libgcc-14-dev{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf-2.0-dev{a} libgdk-pixbuf2.0-bin{a} libgdk-pixbuf2.0-common{a} libgfortran5{a} libgio-2.0-dev{a} libgio-2.0-dev-bin{a} libgirepository-1.0-1{a} libgirepository-2.0-0{a} libgl-dev{a} libgl1{a} libgl1-mesa-dri{a} libgles-dev{a} libgles1{a} libgles2{a} libglib2.0-0t64{a} libglib2.0-bin{a} libglib2.0-data{a} libglib2.0-dev{a} libglib2.0-dev-bin{a} libglibmm-2.68-1t64{a} libglibmm-2.68-dev{a} libglm-dev{a} libglvnd-core-dev{a} libglvnd-dev{a} libglvnd0{a} libglx-dev{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphene-1.0-0{a} libgraphene-1.0-dev{a} libgraphite2-3{a} libgraphite2-dev{a} libgs-common{a} libgs10{a} libgs10-common{a} libgsl-dev{a} libgsl28{a} libgslcblas0{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgstreamer-gl1.0-0{a} libgstreamer-plugins-base1.0-0{a} libgstreamer1.0-0{a} libgtk-4-1{a} libgtk-4-common{a} libgtk-4-dev{a} libgtkmm-4.0-0{a} libgtkmm-4.0-dev{a} libgudev-1.0-0{a} libharfbuzz-cairo0{a} libharfbuzz-dev{a} libharfbuzz-gobject0{a} libharfbuzz-icu0{a} libharfbuzz-subset0{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libhsa-runtime64-1{a} libhsakmt1{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs1{a} libice-dev{a} libice6{a} libicu-dev{a} libicu76{a} libidn12{a} libidn2-0{a} libidn2-dev{a} libijs-0.35{a} libinchi1.07{a} libjbig-dev{a} libjbig0{a} libjbig2dec0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-sphinxdoc{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc-dev{a} liblerc4{a} libllvm17t64{a} libllvm19{a} liblqr-1-0{a} libltdl7{a} liblzma-dev{a} liblzo2-2{a} libmaeparser-dev{a} libmaeparser1{a} libmagic-mgc{a} libmagic1t64{a} libmagickcore-7.q16-10{a} libmagickwand-7.q16-10{a} libmmdb2-0{a} libmmdb2-dev{a} libmount-dev{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libnl-3-200{a} libnl-route-3-200{a} libnuma1{a} libogg-dev{a} libogg0{a} libopengl-dev{a} libopengl0{a} libopenjp2-7{a} libopenmpi40{a} liborc-0.4-0t64{a} libp11-kit-dev{a} libp11-kit0{a} libpam-systemd{a} libpango-1.0-0{a} libpango1.0-dev{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpangomm-2.48-1t64{a} libpangomm-2.48-dev{a} libpangoxft-1.0-0{a} libpaper2{a} libpciaccess0{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpixman-1-dev{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraw23t64{a} librdkit-dev{a} librdkit1t64{a} librdmacm1t64{a} libreadline8t64{a} librhash1{a} librsvg2-2{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libselinux1-dev{a} libsensors-config{a} libsensors5{a} libsepol-dev{a} libsharpyuv-dev{a} libsharpyuv0{a} libsigc++-3.0-0{a} libsigc++-3.0-dev{a} libsm-dev{a} libsm6{a} libsqlite3-dev{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libssm-dev{a} libssm2{a} libstdc++-14-dev{a} libsysprof-capture-4-dev{a} libsystemd-shared{a} libtasn1-6{a} libtasn1-6-dev{a} libthai-data{a} libthai-dev{a} libthai0{a} libtiff-dev{a} libtiff6{a} libtiffxx6{a} libtool{a} libuchardet0{a} libucx0{a} libunbound8{a} libunistring5{a} libuv1t64{a} libvorbis-dev{a} libvorbis0a{a} libvorbisenc2{a} libvorbisfile3{a} libvulkan-dev{a} libvulkan1{a} libwayland-bin{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-dev{a} libwayland-egl1{a} libwayland-server0{a} libwebp-dev{a} libwebp7{a} libwebpdecoder3{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-render0-dev{a} libxcb-shm0{a} libxcb-shm0-dev{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcb1-dev{a} libxcomposite-dev{a} libxcomposite1{a} libxcursor-dev{a} libxcursor1{a} libxdamage-dev{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes-dev{a} libxfixes3{a} libxft-dev{a} libxft2{a} libxi-dev{a} libxi6{a} libxinerama-dev{a} libxinerama1{a} libxkbcommon-dev{a} libxkbcommon0{a} libxml2-16{a} libxnvctrl0{a} libxrandr-dev{a} libxrandr2{a} libxrender-dev{a} libxrender1{a} libxshmfence1{a} libxt6t64{a} libxxf86vm1{a} libz3-4{a} libzstd-dev{a} m4{a} man-db{a} media-types{a} mesa-libgallium{a} nanobind-dev{a} native-architecture{a} netbase{a} nettle-dev{a} ocl-icd-libopencl1{a} openssl{a} pango1.0-tools{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} poppler-data{a} procps{a} python-gi-dev{a} python3{a} python3-autocommand{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-dev{a} python3-gi{a} python3-idna{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pkg-resources{a} python3-rdkit{a} python3-requests{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} rdkit-data{a} readline-common{a} robin-map-dev{a} sensible-utils{a} sfftw-dev{a} sfftw2{a} shared-mime-info{a} sharutils{a} swig{a} systemd{a} systemd-sysv{a} tao-pegtl-dev{a} tzdata{a} uuid-dev{a} wayland-protocols{a} x11-common{a} x11proto-dev{a} xfonts-encodings{a} xfonts-utils{a} xkb-data{a} xorg-sgml-doctools{a} xtrans-dev{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf bzip2-doc chrony curl fonts-droid-fallback gstreamer1.0-gl gstreamer1.0-plugins-base krb5-locales libarchive-cpio-perl libgtk-4-bin libheif-plugin-aomenc libheif-plugin-x265 libkmod2 libldap-common libltdl-dev libmagickcore-7.q16-10-extra libmail-sendmail-perl libnss-systemd libpam-cap libpaper-utils libpng-tools librsvg2-common libsasl2-modules libtasn1-doc linux-sysctl-defaults lynx mesa-vulkan-drivers netpbm ntpsec openntpd psmisc publicsuffix systemd-cryptsetup systemd-timesyncd wget xdg-user-dirs 0 packages upgraded, 510 newly installed, 0 to remove and 0 not upgraded. Need to get 317 MB of archives. After unpacking 1636 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libsystemd-shared arm64 258-1 [1979 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 systemd arm64 258-1 [3025 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 systemd-sysv arm64 258-1 [62.9 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 libdbus-1-3 arm64 1.16.2-2 [169 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 dbus-bin arm64 1.16.2-2 [78.8 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 dbus-session-bus-common all 1.16.2-2 [52.3 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 libapparmor1 arm64 4.1.0-1 [42.9 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.7.2-1 [95.7 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 dbus-daemon arm64 1.16.2-2 [152 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 dbus-system-bus-common all 1.16.2-2 [53.5 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 dbus arm64 1.16.2-2 [70.7 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 libfftw3-double3 arm64 3.3.10-2+b1 [337 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.50-1 [275 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 fonts-freefont-ttf all 20211204+svn4273-4 [5318 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libfontenc1 arm64 1:1.1.8-1+b2 [22.5 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+25 [217 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 22 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2.4 [318 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2.4 [387 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libdav1d7 arm64 1.5.1-1 [252 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 libheif-plugin-dav1d arm64 1.20.2-2 [18.1 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 libde265-0 arm64 1.0.16-1 [153 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 libheif-plugin-libde265 arm64 1.20.2-2 [16.9 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 libheif1 arm64 1.20.2-2 [536 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.84.4-3 [1428 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 liblqr-1-0 arm64 0.4.2-2.1+b2 [27.0 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 libltdl7 arm64 2.5.4-5 [415 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 libopenjp2-7 arm64 2.5.3-2.1 [189 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libraw23t64 arm64 0.21.4-2 [371 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.7.0-5 [331 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.2 [582 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 imagemagick-7-common all 8:7.1.2.3+dfsg1-1 [69.0 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libmagickcore-7.q16-10 arm64 8:7.1.2.3+dfsg1-1 [1660 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 libmagickwand-7.q16-10 arm64 8:7.1.2.3+dfsg1-1 [270 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 poppler-data all 0.4.12-1 [1601 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 media-types all 13.0.0 [29.3 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 netbase all 6.5 [12.4 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025b-5 [260 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1.2 [138 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-7 [135 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 15.2.0-4 [371 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-7 [1846 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:2.2.4+ds-1.2 [3620 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.5.2-1 [1457 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20250419 [162 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libpam-systemd arm64 258-1 [286 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.41.1-3 [98.1 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-5 [312 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 shared-mime-info arm64 2.4-5+b3 [755 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf-2.0-0 arm64 2.42.12+dfsg-5 [131 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 gtk-update-icon-cache arm64 4.20.1+ds-2 [52.6 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 adwaita-icon-theme all 49.0-1 [507 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.20-1 [316 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-4 [862 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 bc arm64 1.07.1-4+b1 [101 kB] Get: 100 http://deb.debian.org/debian unstable/main arm64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 libarchive13t64 arm64 3.7.4-4+b1 [323 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 103 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 106 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 109 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 libnghttp3-9 arm64 1.11.0-1 [66.7 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.10-2 [1395 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.16.0-1 [388 kB] Get: 122 http://deb.debian.org/debian unstable/main arm64 libjsoncpp26 arm64 1.9.6-4 [73.2 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 librhash1 arm64 1.4.6-1 [131 kB] Get: 124 http://deb.debian.org/debian unstable/main arm64 libuv1t64 arm64 1.51.0-2 [150 kB] Get: 125 http://deb.debian.org/debian unstable/main arm64 cmake arm64 4.1.1+really3.31.6-2 [10.1 MB] Get: 126 http://deb.debian.org/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.2-3+b3 [56.9 kB] Get: 127 http://deb.debian.org/debian unstable/main arm64 dbus-user-session arm64 1.16.2-2 [52.1 kB] Get: 128 http://deb.debian.org/debian unstable/main arm64 libdconf1 arm64 0.49.0-1 [41.8 kB] Get: 129 http://deb.debian.org/debian unstable/main arm64 dconf-service arm64 0.49.0-1 [31.9 kB] Get: 130 http://deb.debian.org/debian unstable/main arm64 dconf-gsettings-backend arm64 0.49.0-1 [28.1 kB] Get: 131 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.26 [91.8 kB] Get: 132 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-5 [540 kB] Get: 133 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 134 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 135 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 136 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 137 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 138 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.16-2 [100 kB] Get: 139 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 140 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 141 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 142 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.26 [939 kB] Get: 143 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20250414 [116 kB] Get: 144 http://deb.debian.org/debian unstable/main arm64 libevent-core-2.1-7t64 arm64 2.1.12-stable-10+b1 [126 kB] Get: 145 http://deb.debian.org/debian unstable/main arm64 libevent-pthreads-2.1-7t64 arm64 2.1.12-stable-10+b1 [54.4 kB] Get: 146 http://deb.debian.org/debian unstable/main arm64 libnl-3-200 arm64 3.11.0-2 [57.9 kB] Get: 147 http://deb.debian.org/debian unstable/main arm64 libnl-route-3-200 arm64 3.11.0-2 [176 kB] Get: 148 http://deb.debian.org/debian unstable/main arm64 libibverbs1 arm64 56.1-1 [58.9 kB] Get: 149 http://deb.debian.org/debian unstable/main arm64 ibverbs-providers arm64 56.1-1 [333 kB] Get: 150 http://deb.debian.org/debian unstable/main arm64 librdmacm1t64 arm64 56.1-1 [67.2 kB] Get: 151 http://deb.debian.org/debian unstable/main arm64 libfabric1 arm64 2.1.0-1.1 [548 kB] Get: 152 http://deb.debian.org/debian unstable/main arm64 libhwloc15 arm64 2.12.2-1 [142 kB] Get: 153 http://deb.debian.org/debian unstable/main arm64 libedit2 arm64 3.1-20250104-1 [89.3 kB] Get: 154 http://deb.debian.org/debian unstable/main arm64 libz3-4 arm64 4.13.3-1 [7507 kB] Get: 155 http://deb.debian.org/debian unstable/main arm64 libllvm17t64 arm64 1:17.0.6-22+b3 [21.3 MB] Get: 156 http://deb.debian.org/debian unstable/main arm64 libamd-comgr2 arm64 6.0+git20231212.4510c28+dfsg-3+b2 [12.1 MB] Get: 157 http://deb.debian.org/debian unstable/main arm64 libdrm-common all 2.4.125-2 [8576 B] Get: 158 http://deb.debian.org/debian unstable/main arm64 libdrm2 arm64 2.4.125-2 [38.4 kB] Get: 159 http://deb.debian.org/debian unstable/main arm64 libdrm-amdgpu1 arm64 2.4.125-2 [22.3 kB] Get: 160 http://deb.debian.org/debian unstable/main arm64 libnuma1 arm64 2.0.19-1 [21.6 kB] Get: 161 http://deb.debian.org/debian unstable/main arm64 libhsakmt1 arm64 6.2.4+ds-1 [58.3 kB] Get: 162 http://deb.debian.org/debian unstable/main arm64 libhsa-runtime64-1 arm64 6.1.2-3 [302 kB] Get: 163 http://deb.debian.org/debian unstable/main arm64 libamdhip64-5 arm64 5.7.1-6 [8824 kB] Get: 164 http://deb.debian.org/debian unstable/main arm64 libibumad3 arm64 56.1-1 [28.6 kB] Get: 165 http://deb.debian.org/debian unstable/main arm64 libibmad5 arm64 56.1-1 [42.4 kB] Get: 166 http://deb.debian.org/debian unstable/main arm64 libucx0 arm64 1.19.0+ds-1 [1081 kB] Get: 167 http://deb.debian.org/debian unstable/main arm64 libpciaccess0 arm64 0.17-3+b3 [51.2 kB] Get: 168 http://deb.debian.org/debian unstable/main arm64 libxnvctrl0 arm64 535.171.04-1+b2 [14.0 kB] Get: 169 http://deb.debian.org/debian unstable/main arm64 ocl-icd-libopencl1 arm64 2.3.3-1 [42.7 kB] Get: 170 http://deb.debian.org/debian unstable/main arm64 libhwloc-plugins arm64 2.12.2-1 [18.1 kB] Get: 171 http://deb.debian.org/debian unstable/main arm64 libopenmpi40 arm64 5.0.8-9 [2821 kB] Get: 172 http://deb.debian.org/debian unstable/main arm64 fftw2 arm64 2.1.5-7+b1 [203 kB] Get: 173 http://deb.debian.org/debian unstable/main arm64 fftw-dev arm64 2.1.5-7+b1 [242 kB] Get: 174 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.15.0-2.4 [463 kB] Get: 175 http://deb.debian.org/debian unstable/main arm64 gcc-14-base arm64 14.3.0-8 [52.1 kB] Get: 176 http://deb.debian.org/debian unstable/main arm64 gemmi arm64 0.7.1+ds-1 [1192 kB] Get: 177 http://deb.debian.org/debian unstable/main arm64 tao-pegtl-dev all 3.2.7-1 [69.4 kB] Get: 178 http://deb.debian.org/debian unstable/main arm64 gemmi-dev arm64 0.7.1+ds-1 [1106 kB] Get: 179 http://deb.debian.org/debian unstable/main arm64 libgs-common all 10.05.1~dfsg-3 [149 kB] Get: 180 http://deb.debian.org/debian unstable/main arm64 libgs10-common all 10.05.1~dfsg-3 [479 kB] Get: 181 http://deb.debian.org/debian unstable/main arm64 libavahi-common-data arm64 0.8-17 [113 kB] Get: 182 http://deb.debian.org/debian unstable/main arm64 libavahi-common3 arm64 0.8-17 [44.9 kB] Get: 183 http://deb.debian.org/debian unstable/main arm64 libavahi-client3 arm64 0.8-17 [48.5 kB] Get: 184 http://deb.debian.org/debian unstable/main arm64 libcups2t64 arm64 2.4.10-4 [243 kB] Get: 185 http://deb.debian.org/debian unstable/main arm64 libidn12 arm64 1.43-2 [47.0 kB] Get: 186 http://deb.debian.org/debian unstable/main arm64 libijs-0.35 arm64 0.35-16 [15.3 kB] Get: 187 http://deb.debian.org/debian unstable/main arm64 libjbig2dec0 arm64 0.20-1+b3 [60.1 kB] Get: 188 http://deb.debian.org/debian unstable/main arm64 libpaper2 arm64 2.2.5-0.3+b2 [16.6 kB] Get: 189 http://deb.debian.org/debian unstable/main arm64 libice6 arm64 2:1.1.1-1 [62.1 kB] Get: 190 http://deb.debian.org/debian unstable/main arm64 libsm6 arm64 2:1.2.6-1 [36.4 kB] Get: 191 http://deb.debian.org/debian unstable/main arm64 libxt6t64 arm64 1:1.2.1-1.3 [182 kB] Get: 192 http://deb.debian.org/debian unstable/main arm64 libgs10 arm64 10.05.1~dfsg-3 [2356 kB] Get: 193 http://deb.debian.org/debian unstable/main arm64 ghostscript arm64 10.05.1~dfsg-3 [50.4 kB] Get: 194 http://deb.debian.org/debian unstable/main arm64 gir1.2-glib-2.0 arm64 2.84.4-3 [199 kB] Get: 195 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB] Get: 196 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 197 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 198 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 199 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-1+b1 [483 kB] Get: 200 http://deb.debian.org/debian unstable/main arm64 libcairo-gobject2 arm64 1.18.4-1+b1 [130 kB] Get: 201 http://deb.debian.org/debian unstable/main arm64 gir1.2-freedesktop arm64 1.84.0-1 [60.5 kB] Get: 202 http://deb.debian.org/debian unstable/main arm64 gir1.2-glib-2.0-dev arm64 2.84.4-3 [916 kB] Get: 203 http://deb.debian.org/debian unstable/main arm64 gir1.2-freedesktop-dev arm64 1.84.0-1 [51.6 kB] Get: 204 http://deb.debian.org/debian unstable/main arm64 gir1.2-gdkpixbuf-2.0 arm64 2.42.12+dfsg-5 [14.4 kB] Get: 205 http://deb.debian.org/debian unstable/main arm64 libgirepository-1.0-1 arm64 1.84.0-1 [108 kB] Get: 206 http://deb.debian.org/debian unstable/main arm64 gir1.2-girepository-2.0 arm64 1.84.0-1 [39.7 kB] Get: 207 http://deb.debian.org/debian unstable/main arm64 libgraphene-1.0-0 arm64 1.10.8-5 [42.1 kB] Get: 208 http://deb.debian.org/debian unstable/main arm64 gir1.2-graphene-1.0 arm64 1.10.8-5 [12.8 kB] Get: 209 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-7 [70.5 kB] Get: 210 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 11.4.5-1 [465 kB] Get: 211 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-gobject0 arm64 11.4.5-1 [30.8 kB] Get: 212 http://deb.debian.org/debian unstable/main arm64 gir1.2-harfbuzz-0.0 arm64 11.4.5-1 [41.5 kB] Get: 213 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 214 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.29-2 [168 kB] Get: 215 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.13-4 [37.4 kB] Get: 216 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB] Get: 217 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.56.3-2 [222 kB] Get: 218 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.56.3-2 [56.5 kB] Get: 219 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.56.3-2 [35.3 kB] Get: 220 http://deb.debian.org/debian unstable/main arm64 libxft2 arm64 2.3.6-1+b4 [51.6 kB] Get: 221 http://deb.debian.org/debian unstable/main arm64 libpangoxft-1.0-0 arm64 1.56.3-2 [28.1 kB] Get: 222 http://deb.debian.org/debian unstable/main arm64 gir1.2-pango-1.0 arm64 1.56.3-2 [39.1 kB] Get: 223 http://deb.debian.org/debian unstable/main arm64 liblzo2-2 arm64 2.10-3+b1 [49.6 kB] Get: 224 http://deb.debian.org/debian unstable/main arm64 libcairo-script-interpreter2 arm64 1.18.4-1+b1 [57.4 kB] Get: 225 http://deb.debian.org/debian unstable/main arm64 libcloudproviders0 arm64 0.3.6-3 [30.0 kB] Get: 226 http://deb.debian.org/debian unstable/main arm64 libcolord2 arm64 1.4.8-1 [129 kB] Get: 227 http://deb.debian.org/debian unstable/main arm64 libepoxy0 arm64 1.5.10-2 [200 kB] Get: 228 http://deb.debian.org/debian unstable/main arm64 libglvnd0 arm64 1.7.0-1+b2 [41.6 kB] Get: 229 http://deb.debian.org/debian unstable/main arm64 libllvm19 arm64 1:19.1.7-6 [23.2 MB] Get: 230 http://deb.debian.org/debian unstable/main arm64 libsensors-config all 1:3.6.2-2 [16.2 kB] Get: 231 http://deb.debian.org/debian unstable/main arm64 libsensors5 arm64 1:3.6.2-2 [36.4 kB] Get: 232 http://deb.debian.org/debian unstable/main arm64 libx11-xcb1 arm64 2:1.8.12-1 [247 kB] Get: 233 http://deb.debian.org/debian unstable/main arm64 libxcb-dri3-0 arm64 1.17.0-2+b1 [107 kB] Get: 234 http://deb.debian.org/debian unstable/main arm64 libxcb-present0 arm64 1.17.0-2+b1 [106 kB] Get: 235 http://deb.debian.org/debian unstable/main arm64 libxcb-randr0 arm64 1.17.0-2+b1 [117 kB] Get: 236 http://deb.debian.org/debian unstable/main arm64 libxcb-sync1 arm64 1.17.0-2+b1 [109 kB] Get: 237 http://deb.debian.org/debian unstable/main arm64 libxcb-xfixes0 arm64 1.17.0-2+b1 [110 kB] Get: 238 http://deb.debian.org/debian unstable/main arm64 libxshmfence1 arm64 1.3.3-1 [11.1 kB] Get: 239 http://deb.debian.org/debian unstable/main arm64 mesa-libgallium arm64 25.2.2-1 [10.4 MB] Get: 240 http://deb.debian.org/debian unstable/main arm64 libgbm1 arm64 25.2.2-1 [45.2 kB] Get: 241 http://deb.debian.org/debian unstable/main arm64 libwayland-client0 arm64 1.24.0-2+b1 [27.5 kB] Get: 242 http://deb.debian.org/debian unstable/main arm64 libegl-mesa0 arm64 25.2.2-1 [114 kB] Get: 243 http://deb.debian.org/debian unstable/main arm64 libegl1 arm64 1.7.0-1+b2 [34.0 kB] Get: 244 http://deb.debian.org/debian unstable/main arm64 libxcb-glx0 arm64 1.17.0-2+b1 [123 kB] Get: 245 http://deb.debian.org/debian unstable/main arm64 libxxf86vm1 arm64 1:1.1.4-1+b4 [19.2 kB] Get: 246 http://deb.debian.org/debian unstable/main arm64 libvulkan1 arm64 1.4.321.0-1 [130 kB] Get: 247 http://deb.debian.org/debian unstable/main arm64 libgl1-mesa-dri arm64 25.2.2-1 [46.6 kB] Get: 248 http://deb.debian.org/debian unstable/main arm64 libglx-mesa0 arm64 25.2.2-1 [109 kB] Get: 249 http://deb.debian.org/debian unstable/main arm64 libglx0 arm64 1.7.0-1+b2 [31.1 kB] Get: 250 http://deb.debian.org/debian unstable/main arm64 libgl1 arm64 1.7.0-1+b2 [90.9 kB] Get: 251 http://deb.debian.org/debian unstable/main arm64 libcap2-bin arm64 1:2.75-10+b1 [35.5 kB] Get: 252 http://deb.debian.org/debian unstable/main arm64 libgstreamer1.0-0 arm64 1.26.6-1 [1284 kB] Get: 253 http://deb.debian.org/debian unstable/main arm64 liborc-0.4-0t64 arm64 1:0.4.41-1 [171 kB] Get: 254 http://deb.debian.org/debian unstable/main arm64 iso-codes all 4.18.0-1 [3125 kB] Get: 255 http://deb.debian.org/debian unstable/main arm64 libgstreamer-plugins-base1.0-0 arm64 1.26.6-1 [897 kB] Get: 256 http://deb.debian.org/debian unstable/main arm64 libgudev-1.0-0 arm64 238-7 [13.9 kB] Get: 257 http://deb.debian.org/debian unstable/main arm64 libwayland-cursor0 arm64 1.24.0-2+b1 [12.2 kB] Get: 258 http://deb.debian.org/debian unstable/main arm64 libwayland-egl1 arm64 1.24.0-2+b1 [6316 B] Get: 259 http://deb.debian.org/debian unstable/main arm64 libgstreamer-gl1.0-0 arm64 1.26.6-1 [253 kB] Get: 260 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-subset0 arm64 11.4.5-1 [542 kB] Get: 261 http://deb.debian.org/debian unstable/main arm64 librsvg2-2 arm64 2.60.0+dfsg-1+b1 [1585 kB] Get: 262 http://deb.debian.org/debian unstable/main arm64 libxfixes3 arm64 1:6.0.0-2+b4 [20.5 kB] Get: 263 http://deb.debian.org/debian unstable/main arm64 libxcursor1 arm64 1:1.2.3-1 [39.3 kB] Get: 264 http://deb.debian.org/debian unstable/main arm64 libxdamage1 arm64 1:1.1.6-1+b2 [15.6 kB] Get: 265 http://deb.debian.org/debian unstable/main arm64 libxi6 arm64 2:1.8.2-1 [77.8 kB] Get: 266 http://deb.debian.org/debian unstable/main arm64 libxinerama1 arm64 2:1.1.4-3+b4 [16.0 kB] Get: 267 http://deb.debian.org/debian unstable/main arm64 xkb-data all 2.42-1 [790 kB] Get: 268 http://deb.debian.org/debian unstable/main arm64 libxkbcommon0 arm64 1.7.0-2.1 [106 kB] Get: 269 http://deb.debian.org/debian unstable/main arm64 libxrandr2 arm64 2:1.5.4-1+b3 [35.9 kB] Get: 270 http://deb.debian.org/debian unstable/main arm64 libgles2 arm64 1.7.0-1+b2 [18.0 kB] Get: 271 http://deb.debian.org/debian unstable/main arm64 libgtk-4-common all 4.20.1+ds-2 [2824 kB] Get: 272 http://deb.debian.org/debian unstable/main arm64 libgtk-4-1 arm64 4.20.1+ds-2 [2977 kB] Get: 273 http://deb.debian.org/debian unstable/main arm64 gir1.2-gtk-4.0 arm64 4.20.1+ds-2 [217 kB] Get: 274 http://deb.debian.org/debian unstable/main arm64 native-architecture all 0.2.6 [2264 B] Get: 275 http://deb.debian.org/debian unstable/main arm64 libgirepository-2.0-0 arm64 2.84.4-3 [134 kB] Get: 276 http://deb.debian.org/debian unstable/main arm64 girepository-tools arm64 2.84.4-3 [139 kB] Get: 277 http://deb.debian.org/debian unstable/main arm64 libicu76 arm64 76.1-4 [9524 kB] Get: 278 http://deb.debian.org/debian unstable/main arm64 icu-devtools arm64 76.1-4 [200 kB] Get: 279 http://deb.debian.org/debian unstable/main arm64 imagemagick-7.q16 arm64 8:7.1.2.3+dfsg1-1 [728 kB] Get: 280 http://deb.debian.org/debian unstable/main arm64 imagemagick arm64 8:7.1.2.3+dfsg1-1 [21.6 kB] Get: 281 http://deb.debian.org/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 282 http://deb.debian.org/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 283 http://deb.debian.org/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 284 http://deb.debian.org/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 285 http://deb.debian.org/debian unstable/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 286 http://deb.debian.org/debian unstable/main arm64 libasound2-data all 1.2.14-2 [21.1 kB] Get: 287 http://deb.debian.org/debian unstable/main arm64 libasound2t64 arm64 1.2.14-2 [364 kB] Get: 288 http://deb.debian.org/debian unstable/main arm64 libasound2-dev arm64 1.2.14-2 [120 kB] Get: 289 http://deb.debian.org/debian unstable/main arm64 libblas-dev arm64 3.12.1-7 [145 kB] Get: 290 http://deb.debian.org/debian unstable/main arm64 uuid-dev arm64 2.41.1-3 [50.1 kB] Get: 291 http://deb.debian.org/debian unstable/main arm64 libblkid-dev arm64 2.41.1-3 [224 kB] Get: 292 http://deb.debian.org/debian unstable/main arm64 libgcc-14-dev arm64 14.3.0-8 [2364 kB] Get: 293 http://deb.debian.org/debian unstable/main arm64 libstdc++-14-dev arm64 14.3.0-8 [2567 kB] Get: 294 http://deb.debian.org/debian unstable/main arm64 libboost1.83-dev arm64 1.83.0-5 [10.6 MB] Get: 295 http://deb.debian.org/debian unstable/main arm64 libboost-atomic1.83.0 arm64 1.83.0-5 [234 kB] Get: 296 http://deb.debian.org/debian unstable/main arm64 libboost-atomic1.83-dev arm64 1.83.0-5 [235 kB] Get: 297 http://deb.debian.org/debian unstable/main arm64 libboost-chrono1.83.0t64 arm64 1.83.0-5 [240 kB] Get: 298 http://deb.debian.org/debian unstable/main arm64 libboost-chrono1.83-dev arm64 1.83.0-5 [245 kB] Get: 299 http://deb.debian.org/debian unstable/main arm64 libboost-date-time1.83.0 arm64 1.83.0-5 [231 kB] Get: 300 http://deb.debian.org/debian unstable/main arm64 libboost-serialization1.83.0 arm64 1.83.0-5 [325 kB] Get: 301 http://deb.debian.org/debian unstable/main arm64 libboost-serialization1.83-dev arm64 1.83.0-5 [374 kB] Get: 302 http://deb.debian.org/debian unstable/main arm64 libboost-date-time1.83-dev arm64 1.83.0-5 [239 kB] Get: 303 http://deb.debian.org/debian unstable/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Get: 304 http://deb.debian.org/debian unstable/main arm64 libboost-regex1.83.0 arm64 1.83.0-5 [314 kB] Get: 305 http://deb.debian.org/debian unstable/main arm64 libicu-dev arm64 76.1-4 [10.6 MB] Get: 306 http://deb.debian.org/debian unstable/main arm64 libboost-regex1.83-dev arm64 1.83.0-5 [335 kB] Get: 307 http://deb.debian.org/debian unstable/main arm64 libboost-iostreams1.83-dev arm64 1.83.0-5 [261 kB] Get: 308 http://deb.debian.org/debian unstable/main arm64 libboost-iostreams-dev arm64 1.83.0.2+b2 [3568 B] Get: 309 http://deb.debian.org/debian unstable/main arm64 libboost-python1.83.0 arm64 1.83.0-5 [296 kB] Get: 310 http://deb.debian.org/debian unstable/main arm64 libboost-numpy1.83.0 arm64 1.83.0-5 [241 kB] Get: 311 http://deb.debian.org/debian unstable/main arm64 libpython3.13 arm64 3.13.7-1 [1978 kB] Get: 312 http://deb.debian.org/debian unstable/main arm64 libexpat1-dev arm64 2.7.2-1 [290 kB] Get: 313 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 314 http://deb.debian.org/debian unstable/main arm64 libpython3.13-dev arm64 3.13.7-1 [4924 kB] Get: 315 http://deb.debian.org/debian unstable/main arm64 libpython3-dev arm64 3.13.7-1 [10.5 kB] Get: 316 http://deb.debian.org/debian unstable/main arm64 python3.13-dev arm64 3.13.7-1 [504 kB] Get: 317 http://deb.debian.org/debian unstable/main arm64 libjs-sphinxdoc all 8.2.3-6 [27.5 kB] Get: 318 http://deb.debian.org/debian unstable/main arm64 python3-dev arm64 3.13.7-1 [26.1 kB] Get: 319 http://deb.debian.org/debian unstable/main arm64 libboost-python1.83-dev arm64 1.83.0-5 [322 kB] Get: 320 http://deb.debian.org/debian unstable/main arm64 libboost-python-dev arm64 1.83.0.2+b2 [3880 B] Get: 321 http://deb.debian.org/debian unstable/main arm64 libboost-system1.83.0 arm64 1.83.0-5 [231 kB] Get: 322 http://deb.debian.org/debian unstable/main arm64 libboost-system1.83-dev arm64 1.83.0-5 [232 kB] Get: 323 http://deb.debian.org/debian unstable/main arm64 libboost-system-dev arm64 1.83.0.2+b2 [3720 B] Get: 324 http://deb.debian.org/debian unstable/main arm64 libboost-thread1.83.0 arm64 1.83.0-5 [266 kB] Get: 325 http://deb.debian.org/debian unstable/main arm64 libboost-thread1.83-dev arm64 1.83.0-5 [277 kB] Get: 326 http://deb.debian.org/debian unstable/main arm64 libboost-thread-dev arm64 1.83.0.2+b2 [3616 B] Get: 327 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 328 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 329 http://deb.debian.org/debian unstable/main arm64 libpng-dev arm64 1.6.50-1 [361 kB] Get: 330 http://deb.debian.org/debian unstable/main arm64 libfreetype-dev arm64 2.13.3+dfsg-1 [600 kB] Get: 331 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 332 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 333 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 334 http://deb.debian.org/debian unstable/main arm64 libfontconfig-dev arm64 2.15.0-2.4 [412 kB] Get: 335 http://deb.debian.org/debian unstable/main arm64 libffi-dev arm64 3.5.2-2 [58.3 kB] Get: 336 http://deb.debian.org/debian unstable/main arm64 libsepol-dev arm64 3.8.1-1 [356 kB] Get: 337 http://deb.debian.org/debian unstable/main arm64 libpcre2-16-0 arm64 10.46-1 [247 kB] Get: 338 http://deb.debian.org/debian unstable/main arm64 libpcre2-32-0 arm64 10.46-1 [238 kB] Get: 339 http://deb.debian.org/debian unstable/main arm64 libpcre2-posix3 arm64 10.46-1 [64.1 kB] Get: 340 http://deb.debian.org/debian unstable/main arm64 libpcre2-dev arm64 10.46-1 [750 kB] Get: 341 http://deb.debian.org/debian unstable/main arm64 libselinux1-dev arm64 3.8.1-1 [172 kB] Get: 342 http://deb.debian.org/debian unstable/main arm64 libmount-dev arm64 2.41.1-3 [30.8 kB] Get: 343 http://deb.debian.org/debian unstable/main arm64 libsysprof-capture-4-dev arm64 49.0-1 [51.4 kB] Get: 344 http://deb.debian.org/debian unstable/main arm64 libgio-2.0-dev arm64 2.84.4-3 [1708 kB] Get: 345 http://deb.debian.org/debian unstable/main arm64 libglib2.0-data all 2.84.4-3 [1286 kB] Get: 346 http://deb.debian.org/debian unstable/main arm64 libglib2.0-bin arm64 2.84.4-3 [126 kB] Get: 347 http://deb.debian.org/debian unstable/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 348 http://deb.debian.org/debian unstable/main arm64 libgio-2.0-dev-bin arm64 2.84.4-3 [165 kB] Get: 349 http://deb.debian.org/debian unstable/main arm64 libglib2.0-dev-bin arm64 2.84.4-3 [54.7 kB] Get: 350 http://deb.debian.org/debian unstable/main arm64 libglib2.0-dev arm64 2.84.4-3 [55.5 kB] Get: 351 http://deb.debian.org/debian unstable/main arm64 libpixman-1-dev arm64 0.44.0-3 [11.4 kB] Get: 352 http://deb.debian.org/debian unstable/main arm64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 353 http://deb.debian.org/debian unstable/main arm64 x11proto-dev all 2024.1-1 [603 kB] Get: 354 http://deb.debian.org/debian unstable/main arm64 libice-dev arm64 2:1.1.1-1 [73.0 kB] Get: 355 http://deb.debian.org/debian unstable/main arm64 libsm-dev arm64 2:1.2.6-1 [40.2 kB] Get: 356 http://deb.debian.org/debian unstable/main arm64 libxau-dev arm64 1:1.0.11-1 [23.9 kB] Get: 357 http://deb.debian.org/debian unstable/main arm64 libxdmcp-dev arm64 1:1.1.5-1 [44.2 kB] Get: 358 http://deb.debian.org/debian unstable/main arm64 xtrans-dev all 1.4.0-1 [98.7 kB] Get: 359 http://deb.debian.org/debian unstable/main arm64 libxcb1-dev arm64 1.17.0-2+b1 [182 kB] Get: 360 http://deb.debian.org/debian unstable/main arm64 libx11-dev arm64 2:1.8.12-1 [883 kB] Get: 361 http://deb.debian.org/debian unstable/main arm64 libxcb-render0-dev arm64 1.17.0-2+b1 [119 kB] Get: 362 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0-dev arm64 1.17.0-2+b1 [108 kB] Get: 363 http://deb.debian.org/debian unstable/main arm64 libxext-dev arm64 2:1.3.4-1+b3 [105 kB] Get: 364 http://deb.debian.org/debian unstable/main arm64 libxrender-dev arm64 1:0.9.12-1 [38.8 kB] Get: 365 http://deb.debian.org/debian unstable/main arm64 libcairo2-dev arm64 1.18.4-1+b1 [43.4 kB] Get: 366 http://deb.debian.org/debian unstable/main arm64 libsigc++-3.0-0 arm64 3.6.0-2+b1 [29.2 kB] Get: 367 http://deb.debian.org/debian unstable/main arm64 libcairomm-1.16-1 arm64 1.18.0-2 [57.4 kB] Get: 368 http://deb.debian.org/debian unstable/main arm64 libsigc++-3.0-dev arm64 3.6.0-2+b1 [51.5 kB] Get: 369 http://deb.debian.org/debian unstable/main arm64 libcairomm-1.16-dev arm64 1.18.0-2 [64.2 kB] Get: 370 http://deb.debian.org/debian unstable/main arm64 libccp4-data all 8.0.0-5 [62.5 kB] Get: 371 http://deb.debian.org/debian unstable/main arm64 libccp4c0t64 arm64 8.0.0-5 [87.6 kB] Get: 372 http://deb.debian.org/debian unstable/main arm64 libmmdb2-0 arm64 2.0.22-1+b2 [309 kB] Get: 373 http://deb.debian.org/debian unstable/main arm64 libccp4f0t64 arm64 8.0.0-5 [184 kB] Get: 374 http://deb.debian.org/debian unstable/main arm64 libccp4-dev arm64 8.0.0-5 [43.0 kB] Get: 375 http://deb.debian.org/debian unstable/main arm64 sfftw2 arm64 2.1.5-7+b1 [203 kB] Get: 376 http://deb.debian.org/debian unstable/main arm64 libclipper2 arm64 2.1.20201109-2+b3 [1102 kB] Get: 377 http://deb.debian.org/debian unstable/main arm64 libmmdb2-dev arm64 2.0.22-1+b2 [92.9 kB] Get: 378 http://deb.debian.org/debian unstable/main arm64 sfftw-dev arm64 2.1.5-7+b1 [244 kB] Get: 379 http://deb.debian.org/debian unstable/main arm64 libclipper-dev arm64 2.1.20201109-2+b3 [82.4 kB] Get: 380 http://deb.debian.org/debian unstable/main arm64 libcoordgen3 arm64 3.0.2-2 [204 kB] Get: 381 http://deb.debian.org/debian unstable/main arm64 libcoordgen-dev arm64 3.0.2-2 [46.6 kB] Get: 382 http://deb.debian.org/debian unstable/main arm64 libngtcp2-16 arm64 1.15.1-1 [122 kB] Get: 383 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-gnutls8 arm64 1.15.1-1 [18.6 kB] Get: 384 http://deb.debian.org/debian unstable/main arm64 libcurl3t64-gnutls arm64 8.16.0-1 [382 kB] Get: 385 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 386 http://deb.debian.org/debian unstable/main arm64 libunbound8 arm64 1.23.1-1 [561 kB] Get: 387 http://deb.debian.org/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.10-2 [456 kB] Get: 388 http://deb.debian.org/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.10-2 [456 kB] Get: 389 http://deb.debian.org/debian unstable/main arm64 libidn2-dev arm64 2.3.8-4 [102 kB] Get: 390 http://deb.debian.org/debian unstable/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 391 http://deb.debian.org/debian unstable/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 392 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-5 [329 kB] Get: 393 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-5 [621 kB] Get: 394 http://deb.debian.org/debian unstable/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB] Get: 395 http://deb.debian.org/debian unstable/main arm64 libgnutls28-dev arm64 3.8.10-2 [1438 kB] Get: 396 http://deb.debian.org/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 397 http://deb.debian.org/debian unstable/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 398 http://deb.debian.org/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1.1+b1 [112 kB] Get: 399 http://deb.debian.org/debian unstable/main arm64 libnghttp3-dev arm64 1.11.0-1 [94.6 kB] Get: 400 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.15.1-1 [24.5 kB] Get: 401 http://deb.debian.org/debian unstable/main arm64 libngtcp2-dev arm64 1.15.1-1 [179 kB] Get: 402 http://deb.debian.org/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 403 http://deb.debian.org/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-3 [173 kB] Get: 404 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.5.2-1 [3386 kB] Get: 405 http://deb.debian.org/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 406 http://deb.debian.org/debian unstable/main arm64 libzstd-dev arm64 1.5.7+dfsg-1.1 [335 kB] Get: 407 http://deb.debian.org/debian unstable/main arm64 libcurl4-gnutls-dev arm64 8.16.0-1 [525 kB] Get: 408 http://deb.debian.org/debian unstable/main arm64 libdatrie-dev arm64 0.2.13-4 [18.4 kB] Get: 409 http://deb.debian.org/debian unstable/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 410 http://deb.debian.org/debian unstable/main arm64 libelf-dev arm64 0.193-3 [98.4 kB] Get: 411 http://deb.debian.org/debian unstable/main arm64 libdw1t64 arm64 0.193-3 [241 kB] Get: 412 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.8.1-1.1 [344 kB] Get: 413 http://deb.debian.org/debian unstable/main arm64 libdw-dev arm64 0.193-3 [328 kB] Get: 414 http://deb.debian.org/debian unstable/main arm64 libglx-dev arm64 1.7.0-1+b2 [15.8 kB] Get: 415 http://deb.debian.org/debian unstable/main arm64 libgl-dev arm64 1.7.0-1+b2 [101 kB] Get: 416 http://deb.debian.org/debian unstable/main arm64 libegl-dev arm64 1.7.0-1+b2 [19.5 kB] Get: 417 http://deb.debian.org/debian unstable/main arm64 libglvnd-core-dev arm64 1.7.0-1+b2 [13.4 kB] Get: 418 http://deb.debian.org/debian unstable/main arm64 libgles1 arm64 1.7.0-1+b2 [12.6 kB] Get: 419 http://deb.debian.org/debian unstable/main arm64 libgles-dev arm64 1.7.0-1+b2 [50.8 kB] Get: 420 http://deb.debian.org/debian unstable/main arm64 libopengl0 arm64 1.7.0-1+b2 [32.1 kB] Get: 421 http://deb.debian.org/debian unstable/main arm64 libopengl-dev arm64 1.7.0-1+b2 [5376 B] Get: 422 http://deb.debian.org/debian unstable/main arm64 libglvnd-dev arm64 1.7.0-1+b2 [5144 B] Get: 423 http://deb.debian.org/debian unstable/main arm64 libegl1-mesa-dev arm64 25.2.2-1 [24.4 kB] Get: 424 http://deb.debian.org/debian unstable/main arm64 libeigen3-dev all 3.4.0-5 [1034 kB] Get: 425 http://deb.debian.org/debian unstable/main arm64 libepoxy-dev arm64 1.5.10-2 [127 kB] Get: 426 http://deb.debian.org/debian unstable/main arm64 libfribidi-dev arm64 1.0.16-1 [65.9 kB] Get: 427 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf2.0-bin arm64 2.42.12+dfsg-5 [19.1 kB] Get: 428 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-4 [293 kB] Get: 429 http://deb.debian.org/debian unstable/main arm64 libjpeg-dev arm64 1:2.1.5-4 [72.2 kB] Get: 430 http://deb.debian.org/debian unstable/main arm64 libjbig-dev arm64 2.1-6.1+b2 [30.5 kB] Get: 431 http://deb.debian.org/debian unstable/main arm64 libwebpdecoder3 arm64 1.5.0-0.1 [182 kB] Get: 432 http://deb.debian.org/debian unstable/main arm64 libsharpyuv-dev arm64 1.5.0-0.1 [118 kB] Get: 433 http://deb.debian.org/debian unstable/main arm64 libwebp-dev arm64 1.5.0-0.1 [406 kB] Get: 434 http://deb.debian.org/debian unstable/main arm64 libtiffxx6 arm64 4.7.0-5 [164 kB] Get: 435 http://deb.debian.org/debian unstable/main arm64 liblerc-dev arm64 4.0.0+ds-5 [164 kB] Get: 436 http://deb.debian.org/debian unstable/main arm64 libtiff-dev arm64 4.7.0-5 [480 kB] Get: 437 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf-2.0-dev arm64 2.42.12+dfsg-5 [52.9 kB] Get: 438 http://deb.debian.org/debian unstable/main arm64 libglibmm-2.68-1t64 arm64 2.84.0-1 [604 kB] Get: 439 http://deb.debian.org/debian unstable/main arm64 libglibmm-2.68-dev arm64 2.84.0-1 [465 kB] Get: 440 http://deb.debian.org/debian unstable/main arm64 libglm-dev all 0.9.9.8+ds-9 [183 kB] Get: 441 http://deb.debian.org/debian unstable/main arm64 libgraphene-1.0-dev arm64 1.10.8-5 [61.5 kB] Get: 442 http://deb.debian.org/debian unstable/main arm64 libgraphite2-dev arm64 1.3.14-7 [20.5 kB] Get: 443 http://deb.debian.org/debian unstable/main arm64 libgslcblas0 arm64 2.8+dfsg-5.1 [91.8 kB] Get: 444 http://deb.debian.org/debian unstable/main arm64 libgsl28 arm64 2.8+dfsg-5.1 [921 kB] Get: 445 http://deb.debian.org/debian unstable/main arm64 libgsl-dev arm64 2.8+dfsg-5.1 [1177 kB] Get: 446 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-icu0 arm64 11.4.5-1 [14.3 kB] Get: 447 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-cairo0 arm64 11.4.5-1 [26.5 kB] Get: 448 http://deb.debian.org/debian unstable/main arm64 libharfbuzz-dev arm64 11.4.5-1 [148 kB] Get: 449 http://deb.debian.org/debian unstable/main arm64 libthai-dev arm64 0.1.29-2+b1 [24.0 kB] Get: 450 http://deb.debian.org/debian unstable/main arm64 libxft-dev arm64 2.3.6-1+b4 [72.0 kB] Get: 451 http://deb.debian.org/debian unstable/main arm64 pango1.0-tools arm64 1.56.3-2 [43.5 kB] Get: 452 http://deb.debian.org/debian unstable/main arm64 libpango1.0-dev arm64 1.56.3-2 [156 kB] Get: 453 http://deb.debian.org/debian unstable/main arm64 libwayland-server0 arm64 1.24.0-2+b1 [34.5 kB] Get: 454 http://deb.debian.org/debian unstable/main arm64 libwayland-bin arm64 1.24.0-2+b1 [21.1 kB] Get: 455 http://deb.debian.org/debian unstable/main arm64 libwayland-dev arm64 1.24.0-2+b1 [75.6 kB] Get: 456 http://deb.debian.org/debian unstable/main arm64 libxcomposite1 arm64 1:0.4.6-1 [16.4 kB] Get: 457 http://deb.debian.org/debian unstable/main arm64 libxfixes-dev arm64 1:6.0.0-2+b4 [22.9 kB] Get: 458 http://deb.debian.org/debian unstable/main arm64 libxcomposite-dev arm64 1:0.4.6-1 [20.2 kB] Get: 459 http://deb.debian.org/debian unstable/main arm64 libxcursor-dev arm64 1:1.2.3-1 [51.9 kB] Get: 460 http://deb.debian.org/debian unstable/main arm64 libxdamage-dev arm64 1:1.1.6-1+b2 [15.5 kB] Get: 461 http://deb.debian.org/debian unstable/main arm64 libxi-dev arm64 2:1.8.2-1 [240 kB] Get: 462 http://deb.debian.org/debian unstable/main arm64 libxinerama-dev arm64 2:1.1.4-3+b4 [18.4 kB] Get: 463 http://deb.debian.org/debian unstable/main arm64 libxkbcommon-dev arm64 1.7.0-2.1 [53.8 kB] Get: 464 http://deb.debian.org/debian unstable/main arm64 libxrandr-dev arm64 2:1.5.4-1+b3 [44.5 kB] Get: 465 http://deb.debian.org/debian unstable/main arm64 libvulkan-dev arm64 1.4.321.0-1 [1672 kB] Get: 466 http://deb.debian.org/debian unstable/main arm64 wayland-protocols all 1.45-2 [127 kB] Get: 467 http://deb.debian.org/debian unstable/main arm64 libgtk-4-dev arm64 4.20.1+ds-2 [1009 kB] Get: 468 http://deb.debian.org/debian unstable/main arm64 libpangomm-2.48-1t64 arm64 2.56.1-1 [81.0 kB] Get: 469 http://deb.debian.org/debian unstable/main arm64 libgtkmm-4.0-0 arm64 4.19.1-4 [1048 kB] Get: 470 http://deb.debian.org/debian unstable/main arm64 libpangomm-2.48-dev arm64 2.56.1-1 [73.2 kB] Get: 471 http://deb.debian.org/debian unstable/main arm64 libgtkmm-4.0-dev arm64 4.19.1-4 [564 kB] Get: 472 http://deb.debian.org/debian unstable/main arm64 libinchi1.07 arm64 1.07.3+dfsg-1 [499 kB] Get: 473 http://deb.debian.org/debian unstable/main arm64 libmaeparser1 arm64 1.3.3-1 [84.6 kB] Get: 474 http://deb.debian.org/debian unstable/main arm64 libmaeparser-dev arm64 1.3.3-1 [13.3 kB] Get: 475 http://deb.debian.org/debian unstable/main arm64 libogg0 arm64 1.3.6-1 [23.6 kB] Get: 476 http://deb.debian.org/debian unstable/main arm64 libogg-dev arm64 1.3.6-1 [200 kB] Get: 477 http://deb.debian.org/debian unstable/main arm64 librdkit1t64 arm64 202503.1-5 [4923 kB] Get: 478 http://deb.debian.org/debian unstable/main arm64 librdkit-dev arm64 202503.1-5 [486 kB] Get: 479 http://deb.debian.org/debian unstable/main arm64 libsqlite3-dev arm64 3.46.1-8 [1098 kB] Get: 480 http://deb.debian.org/debian unstable/main arm64 libssm2 arm64 1.4.0-2+b3 [75.3 kB] Get: 481 http://deb.debian.org/debian unstable/main arm64 libssm-dev arm64 1.4.0-2+b3 [15.2 kB] Get: 482 http://deb.debian.org/debian unstable/main arm64 libvorbis0a arm64 1.3.7-3 [83.8 kB] Get: 483 http://deb.debian.org/debian unstable/main arm64 libvorbisenc2 arm64 1.3.7-3 [75.5 kB] Get: 484 http://deb.debian.org/debian unstable/main arm64 libvorbisfile3 arm64 1.3.7-3 [20.1 kB] Get: 485 http://deb.debian.org/debian unstable/main arm64 libvorbis-dev arm64 1.3.7-3 [320 kB] Get: 486 http://deb.debian.org/debian unstable/main arm64 robin-map-dev all 1.3.0-1 [29.8 kB] Get: 487 http://deb.debian.org/debian unstable/main arm64 nanobind-dev all 2.5.0-1 [165 kB] Get: 488 http://deb.debian.org/debian unstable/main arm64 python3-gi arm64 3.50.0-6 [237 kB] Get: 489 http://deb.debian.org/debian unstable/main arm64 python-gi-dev arm64 3.50.0-6 [13.7 kB] Get: 490 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 491 http://deb.debian.org/debian unstable/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 492 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 493 http://deb.debian.org/debian unstable/main arm64 python3-charset-normalizer arm64 3.4.3-1 [123 kB] Get: 494 http://deb.debian.org/debian unstable/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 495 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 496 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 497 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 498 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 499 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 500 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 501 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 502 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 503 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 504 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 505 http://deb.debian.org/debian unstable/main arm64 rdkit-data all 202503.1-5 [13.2 MB] Get: 506 http://deb.debian.org/debian unstable/main arm64 python3-rdkit arm64 202503.1-5 [4358 kB] Get: 507 http://deb.debian.org/debian unstable/main arm64 python3-urllib3 all 2.5.0-1 [116 kB] Get: 508 http://deb.debian.org/debian unstable/main arm64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Get: 509 http://deb.debian.org/debian unstable/main arm64 sharutils arm64 1:4.15.2-12 [261 kB] Get: 510 http://deb.debian.org/debian unstable/main arm64 swig arm64 4.3.0-1 [1406 kB] Fetched 317 MB in 2s (130 MB/s) Preconfiguring packages ... Selecting previously unselected package libsystemd-shared:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20020 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_258-1_arm64.deb ... Unpacking libsystemd-shared:arm64 (258-1) ... Setting up libsystemd-shared:arm64 (258-1) ... Selecting previously unselected package systemd. (Reading database ... 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Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. Selecting previously unselected package systemd-sysv. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21026 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_258-1_arm64.deb ... Unpacking systemd-sysv (258-1) ... Selecting previously unselected package libdbus-1-3:arm64. Preparing to unpack .../01-libdbus-1-3_1.16.2-2_arm64.deb ... Unpacking libdbus-1-3:arm64 (1.16.2-2) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.16.2-2_arm64.deb ... Unpacking dbus-bin (1.16.2-2) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.16.2-2_all.deb ... Unpacking dbus-session-bus-common (1.16.2-2) ... Selecting previously unselected package libapparmor1:arm64. Preparing to unpack .../04-libapparmor1_4.1.0-1_arm64.deb ... Unpacking libapparmor1:arm64 (4.1.0-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../05-libexpat1_2.7.2-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.2-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../06-dbus-daemon_1.16.2-2_arm64.deb ... Unpacking dbus-daemon (1.16.2-2) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../07-dbus-system-bus-common_1.16.2-2_all.deb ... Unpacking dbus-system-bus-common (1.16.2-2) ... Selecting previously unselected package dbus. Preparing to unpack .../08-dbus_1.16.2-2_arm64.deb ... Unpacking dbus (1.16.2-2) ... Selecting previously unselected package libfftw3-double3:arm64. Preparing to unpack .../09-libfftw3-double3_3.3.10-2+b1_arm64.deb ... Unpacking libfftw3-double3:arm64 (3.3.10-2+b1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../10-libbrotli1_1.1.0-2+b7_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b7) ... Selecting previously unselected package libpng16-16t64:arm64. Preparing to unpack .../11-libpng16-16t64_1.6.50-1_arm64.deb ... Unpacking libpng16-16t64:arm64 (1.6.50-1) ... Selecting previously unselected package libfreetype6:arm64. Preparing to unpack .../12-libfreetype6_2.13.3+dfsg-1_arm64.deb ... Unpacking libfreetype6:arm64 (2.13.3+dfsg-1) ... Selecting previously unselected package fonts-freefont-ttf. Preparing to unpack .../13-fonts-freefont-ttf_20211204+svn4273-4_all.deb ... Unpacking fonts-freefont-ttf (20211204+svn4273-4) ... Selecting previously unselected package libfontenc1:arm64. 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Unpacking imagemagick-7-common (8:7.1.2.3+dfsg1-1) ... Selecting previously unselected package libmagickcore-7.q16-10:arm64. Preparing to unpack .../50-libmagickcore-7.q16-10_8%3a7.1.2.3+dfsg1-1_arm64.deb ... Unpacking libmagickcore-7.q16-10:arm64 (8:7.1.2.3+dfsg1-1) ... Selecting previously unselected package libmagickwand-7.q16-10:arm64. Preparing to unpack .../51-libmagickwand-7.q16-10_8%3a7.1.2.3+dfsg1-1_arm64.deb ... Unpacking libmagickwand-7.q16-10:arm64 (8:7.1.2.3+dfsg1-1) ... Selecting previously unselected package poppler-data. Preparing to unpack .../52-poppler-data_0.4.12-1_all.deb ... Unpacking poppler-data (0.4.12-1) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../53-libpython3.13-minimal_3.13.7-1_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../54-python3.13-minimal_3.13.7-1_arm64.deb ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../6-libpython3.13-stdlib_3.13.7-1_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../7-python3.13_3.13.7-1_arm64.deb ... Unpacking python3.13 (3.13.7-1) ... 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Setting up libkeyutils1:arm64 (1.6.3-6) ... Setting up libapparmor1:arm64 (4.1.0-1) ... Setting up libxcb1:arm64 (1.17.0-2+b1) ... Setting up swig (4.3.0-1) ... Setting up libpixman-1-dev:arm64 (0.44.0-3) ... Setting up native-architecture (0.2.6) ... Setting up libxcb-xfixes0:arm64 (1.17.0-2+b1) ... Setting up libogg0:arm64 (1.3.6-1) ... Setting up libzstd-dev:arm64 (1.5.7+dfsg-1.1) ... Setting up liblerc4:arm64 (4.0.0+ds-5) ... Setting up bsdextrautils (2.41.1-3) ... Setting up libglvnd-core-dev:arm64 (1.7.0-1+b2) ... Setting up hicolor-icon-theme (0.18-2) ... Setting up libboost-date-time1.83.0:arm64 (1.83.0-5) ... Setting up libdatrie1:arm64 (0.2.13-4) ... Setting up libgslcblas0:arm64 (2.8+dfsg-5.1) ... Setting up libmmdb2-0:arm64 (2.0.22-1+b2) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up gcc-14-base:arm64 (14.3.0-8) ... Setting up libxcb-render0:arm64 (1.17.0-2+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up imagemagick-7-common (8:7.1.2.3+dfsg1-1) ... Setting up libglvnd0:arm64 (1.7.0-1+b2) ... Setting up libxml2-16:arm64 (2.14.5+dfsg-0.2) ... Setting up libijs-0.35:arm64 (0.35-16) ... Setting up libboost-regex1.83.0:arm64 (1.83.0-5) ... Setting up libxcb-glx0:arm64 (1.17.0-2+b1) ... Setting up libdebhelper-perl (13.26) ... Setting up libgs-common (10.05.1~dfsg-3) ... Setting up libbrotli1:arm64 (1.1.0-2+b7) ... Setting up libedit2:arm64 (3.1-20250104-1) ... Setting up libboost-system1.83.0:arm64 (1.83.0-5) ... Setting up libgdk-pixbuf2.0-common (2.42.12+dfsg-5) ... Setting up libuv1t64:arm64 (1.51.0-2) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up x11-common (1:7.7+25) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libsensors-config (1:3.6.2-2) ... Setting up libnghttp2-14:arm64 (1.64.0-1.1+b1) ... Setting up libibumad3:arm64 (56.1-1) ... Setting up libdeflate0:arm64 (1.23-2) ... Setting up fonts-freefont-ttf (20211204+svn4273-4) ... Setting up libwebpdecoder3:arm64 (1.5.0-0.1) ... Setting up libboost-thread1.83.0:arm64 (1.83.0-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-1) ... Setting up libevent-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up xkb-data (2.42-1) ... Setting up liblzo2-2:arm64 (2.10-3+b1) ... Setting up libxcb-shm0:arm64 (1.17.0-2+b1) ... Setting up libibmad5:arm64 (56.1-1) ... Setting up libcom-err2:arm64 (1.47.2-3+b3) ... Setting up file (1:5.46-5) ... Setting up libccp4-data (8.0.0-5) ... Setting up libogg-dev:arm64 (1.3.6-1) ... Setting up rdkit-data (202503.1-5) ... Setting up libjbig0:arm64 (2.1-6.1+b2) ... Setting up libpcre2-16-0:arm64 (10.46-1) ... Setting up libopengl0:arm64 (1.7.0-1+b2) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up poppler-data (0.4.12-1) ... Setting up liborc-0.4-0t64:arm64 (1:0.4.41-1) ... Setting up libkrb5support0:arm64 (1.21.3-5) ... Setting up libdw1t64:arm64 (0.193-3) ... Setting up libmaeparser1:arm64 (1.3.3-1) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-9) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Oct 21 13:03:57 UTC 2026. Universal Time is now: Wed Oct 21 13:03:57 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libboost-atomic1.83.0:arm64 (1.83.0-5) ... Setting up libcap2-bin (1:2.75-10+b1) ... Setting up libxcb-present0:arm64 (1.17.0-2+b1) ... Setting up libsysprof-capture-4-dev:arm64 (49.0-1) ... Setting up libasound2-data (1.2.14-2) ... Setting up libboost-serialization1.83.0:arm64 (1.83.0-5) ... Setting up xtrans-dev (1.4.0-1) ... Setting up libwayland-bin (1.24.0-2+b1) ... Setting up libboost-numpy1.83.0 (1.83.0-5) ... Setting up libgraphite2-dev:arm64 (1.3.14-7) ... Setting up libfontenc1:arm64 (1:1.1.8-1+b2) ... Setting up autotools-dev (20240727.1) ... Setting up libz3-4:arm64 (4.13.3-1) ... Setting up libpcre2-32-0:arm64 (10.46-1) ... Setting up libblas3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libglib2.0-data (2.84.4-3) ... Setting up libunbound8:arm64 (1.23.1-1) ... Setting up libpkgconf3:arm64 (1.8.1-4) ... Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-5) ... Setting up libgles2:arm64 (1.7.0-1+b2) ... Setting up libasound2t64:arm64 (1.2.14-2) ... Setting up libexpat1-dev:arm64 (2.7.2-1) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-4) ... Setting up libsqlite3-dev:arm64 (3.46.1-8) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libjpeg62-turbo-dev:arm64 (1:2.1.5-4) ... Setting up libepoxy0:arm64 (1.5.10-2) ... Setting up libboost-chrono1.83.0t64:arm64 (1.83.0-5) ... Setting up libxcb-sync1:arm64 (1.17.0-2+b1) ... Setting up libjbig2dec0:arm64 (0.20-1+b3) ... Setting up libjsoncpp26:arm64 (1.9.6-4) ... Setting up uuid-dev:arm64 (2.41.1-3) ... 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Setting up libssh2-1t64:arm64 (1.11.1-1) ... Setting up libopengl-dev:arm64 (1.7.0-1+b2) ... Setting up libcoordgen3:arm64 (3.0.2-2) ... Setting up gemmi (0.7.1+ds-1) ... Setting up sharutils (1:4.15.2-12) ... Setting up libgcc-14-dev:arm64 (14.3.0-8) ... Setting up dbus-system-bus-common (1.16.2-2) ... Creating group 'messagebus' with GID 997. Creating user 'messagebus' (System Message Bus) with UID 997 and GID 997. Setting up libasound2-dev:arm64 (1.2.14-2) ... Setting up libgsl28:arm64 (2.8+dfsg-5.1) ... Setting up libde265-0:arm64 (1.0.16-1) ... Setting up libsharpyuv-dev:arm64 (1.5.0-0.1) ... Setting up libtasn1-6-dev:arm64 (4.20.0-2) ... Setting up openssl (3.5.2-1) ... Setting up libwebpmux3:arm64 (1.5.0-0.1) ... Setting up libtiffxx6:arm64 (4.7.0-5) ... Setting up libinchi1.07 (1.07.3+dfsg-1) ... Setting up libdeflate-dev:arm64 (1.23-2) ... Setting up libstdc++-14-dev:arm64 (14.3.0-8) ... Setting up libdrm-common (2.4.125-2) ... Setting up libxcomposite1:arm64 (1:0.4.6-1) ... Setting up libarchive13t64:arm64 (3.7.4-4+b1) ... Setting up readline-common (8.3-3) ... Setting up libldap2:arm64 (2.6.10+dfsg-1) ... Setting up iso-codes (4.18.0-1) ... Setting up dbus-bin (1.16.2-2) ... Setting up libbrotli-dev:arm64 (1.1.0-2+b7) ... Setting up libblas-dev:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode Setting up tao-pegtl-dev (3.2.7-1) ... Setting up libvorbisenc2:arm64 (1.3.7-3) ... Setting up libbz2-dev:arm64 (1.0.8-6) ... Setting up libxkbcommon0:arm64 (1.7.0-2.1) ... Setting up libwayland-client0:arm64 (1.24.0-2+b1) ... Setting up libmaeparser-dev:arm64 (1.3.3-1) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up x11proto-dev (2024.1-1) ... Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up libxcb-dri3-0:arm64 (1.17.0-2+b1) ... Setting up libblkid-dev:arm64 (2.41.1-3) ... Setting up libllvm19 (1:19.1.7-6) ... Setting up libwayland-server0:arm64 (1.24.0-2+b1) ... Setting up libx11-xcb1:arm64 (2:1.8.12-1) ... Setting up libice6:arm64 (2:1.1.1-1) ... Setting up liblapack3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up libboost1.83-dev:arm64 (1.83.0-5) ... Setting up gettext (0.23.1-2+b1) ... Setting up libgsl-dev (2.8+dfsg-5.1) ... Setting up libxdamage1:arm64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-5) ... Setting up libssm2:arm64 (1.4.0-2+b3) ... Setting up libxau-dev:arm64 (1:1.0.11-1) ... Setting up libboost-chrono1.83-dev:arm64 (1.83.0-5) ... Setting up libpcre2-dev:arm64 (10.46-1) ... Setting up nettle-dev:arm64 (3.10.1-1) ... Setting up libxrender1:arm64 (1:0.9.12-1) ... Setting up libice-dev:arm64 (2:1.1.1-1) ... Setting up libtool (2.5.4-5) ... Setting up libselinux1-dev:arm64 (3.8.1-1) ... Setting up libevent-pthreads-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up fontconfig-config (2.15.0-2.4) ... Setting up libfribidi-dev:arm64 (1.0.16-1) ... Setting up libwebpdemux2:arm64 (1.5.0-0.1) ... Setting up libxkbcommon-dev:arm64 (1.7.0-2.1) ... Setting up gemmi-dev (0.7.1+ds-1) ... Setting up libpng-dev:arm64 (1.6.50-1) ... Setting up libavahi-common3:arm64 (0.8-17) ... Setting up libboost-serialization1.83-dev:arm64 (1.83.0-5) ... Setting up libjpeg-dev:arm64 (1:2.1.5-4) ... Setting up libjbig-dev:arm64 (2.1-6.1+b2) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libidn2-0:arm64 (2.3.8-4) ... Setting up dbus-daemon (1.16.2-2) ... Setting up libngtcp2-dev:arm64 (1.15.1-1) ... Setting up libffi-dev:arm64 (3.5.2-2) ... Setting up libccp4f0t64:arm64 (8.0.0-5) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up libxxf86vm1:arm64 (1:1.1.4-1+b4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnl-route-3-200:arm64 (3.11.0-2) ... Setting up libxnvctrl0:arm64 (535.171.04-1+b2) ... Setting up dh-autoreconf (21) ... Setting up libthai0:arm64 (0.1.29-2+b1) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libvorbisfile3:arm64 (1.3.7-3) ... Setting up libsigc++-3.0-dev:arm64 (3.6.0-2+b1) ... Setting up libxdmcp-dev:arm64 (1:1.1.5-1) ... Setting up libglib2.0-0t64:arm64 (2.84.4-3) ... Setting up libwebp-dev:arm64 (1.5.0-0.1) ... Setting up libllvm17t64:arm64 (1:17.0.6-22+b3) ... Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libtiff-dev:arm64 (4.7.0-5) ... Setting up libxfixes3:arm64 (1:6.0.0-2+b4) ... Setting up libboost-date-time1.83-dev:arm64 (1.83.0-5) ... Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up dbus (1.16.2-2) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b3) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up libxinerama1:arm64 (2:1.1.4-3+b4) ... Setting up libeigen3-dev (3.4.0-5) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libxrandr2:arm64 (2:1.5.4-1+b3) ... Setting up libelf-dev:arm64 (0.193-3) ... Setting up icu-devtools (76.1-4) ... Setting up gir1.2-glib-2.0:arm64 (2.84.4-3) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.8-4) ... Setting up libboost-atomic1.83-dev:arm64 (1.83.0-5) ... Setting up libreadline8t64:arm64 (8.3-3) ... Setting up libssm-dev:arm64 (1.4.0-2+b3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up libdrm2:arm64 (2.4.125-2) ... Setting up libdatrie-dev:arm64 (0.2.13-4) ... Setting up liblqr-1-0:arm64 (0.4.2-2.1+b2) ... Setting up gir1.2-glib-2.0-dev:arm64 (2.84.4-3) ... Setting up groff-base (1.23.0-9) ... Setting up libwayland-cursor0:arm64 (1.24.0-2+b1) ... Setting up libpam-systemd:arm64 (258-1) ... Setting up libharfbuzz0b:arm64 (11.4.5-1) ... Setting up libgirepository-1.0-1:arm64 (1.84.0-1) ... Setting up libgdk-pixbuf-2.0-0:arm64 (2.42.12+dfsg-5) ... Setting up libboost-dev:arm64 (1.83.0.2+b2) ... Setting up libamd-comgr2:arm64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up libfontconfig1:arm64 (2.15.0-2.4) ... Setting up libboost-system1.83-dev:arm64 (1.83.0-5) ... Setting up libcoordgen-dev:arm64 (3.0.2-2) ... Setting up libsm6:arm64 (2:1.2.6-1) ... Setting up libpython3.13-stdlib:arm64 (3.13.7-1) ... Setting up libicu-dev:arm64 (76.1-4) ... Setting up libavahi-client3:arm64 (0.8-17) ... Setting up libmount-dev:arm64 (2.41.1-3) ... Setting up libgudev-1.0-0:arm64 (238-7) ... Setting up libgstreamer1.0-0:arm64 (1.26.6-1) ... Setcap worked! gst-ptp-helper is not suid! Setting up libp11-kit-dev:arm64 (0.25.5-3) ... Setting up libgraphene-1.0-0:arm64 (1.10.8-5) ... Setting up libpython3-stdlib:arm64 (3.13.7-1) ... Setting up libdrm-amdgpu1:arm64 (2.4.125-2) ... Setting up libpython3.13:arm64 (3.13.7-1) ... Setting up libgnutls30t64:arm64 (3.8.10-2) ... Setting up gir1.2-graphene-1.0:arm64 (1.10.8-5) ... Setting up libboost-thread1.83-dev:arm64 (1.83.0-5) ... Setting up libvorbis-dev:arm64 (1.3.7-3) ... Setting up libgnutls-openssl27t64:arm64 (3.8.10-2) ... Setting up gtk-update-icon-cache (4.20.1+ds-2) ... Setting up libnghttp2-dev:arm64 (1.64.0-1.1+b1) ... Setting up mesa-libgallium:arm64 (25.2.2-1) ... Setting up libibverbs1:arm64 (56.1-1) ... Setting up fontconfig (2.15.0-2.4) ... Regenerating fonts cache... done. Setting up libxft2:arm64 (2.3.6-1+b4) ... Setting up libgio-2.0-dev:arm64 (2.84.4-3) ... Setting up libharfbuzz-icu0:arm64 (11.4.5-1) ... Setting up libxcb1-dev:arm64 (1.17.0-2+b1) ... Setting up libglibmm-2.68-1t64:arm64 (2.84.0-1) ... Setting up libxi6:arm64 (2:1.8.2-1) ... Setting up gir1.2-gdkpixbuf-2.0:arm64 (2.42.12+dfsg-5) ... Setting up libccp4-dev:arm64 (8.0.0-5) ... Setting up libgbm1:arm64 (25.2.2-1) ... Setting up ibverbs-providers:arm64 (56.1-1) ... Setting up python3.13 (3.13.7-1) ... Setting up libgirepository-2.0-0:arm64 (2.84.4-3) ... Setting up libsm-dev:arm64 (2:1.2.6-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libxcursor1:arm64 (1:1.2.3-1) ... Setting up nanobind-dev (2.5.0-1) ... Setting up libboost-system-dev:arm64 (1.83.0.2+b2) ... Setting up libpango-1.0-0:arm64 (1.56.3-2) ... Setting up libgl1-mesa-dri:arm64 (25.2.2-1) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up libx11-dev:arm64 (2:1.8.12-1) ... Setting up libcloudproviders0:arm64 (0.3.6-3) ... Setting up bc (1.07.1-4+b1) ... Setting up libglib2.0-bin (2.84.4-3) ... Setting up libgstreamer-plugins-base1.0-0:arm64 (1.26.6-1) ... Setting up python3 (3.13.7-1) ... Setting up libharfbuzz-gobject0:arm64 (11.4.5-1) ... Setting up python3-zipp (3.23.0-1) ... Setting up xfonts-utils (1:7.7+7) ... Setting up python3-autocommand (2.2.2-3) ... Setting up libhwloc-plugins:arm64 (2.12.2-1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libwayland-dev:arm64 (1.24.0-2+b1) ... Setting up libdw-dev:arm64 (0.193-3) ... Setting up libcairo2:arm64 (1.18.4-1+b1) ... Setting up libcolord2:arm64 (1.4.8-1) ... Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ... Setting up libfreetype-dev:arm64 (2.13.3+dfsg-1) ... Setting up libdconf1:arm64 (0.49.0-1) ... Setting up libcairomm-1.16-1:arm64 (1.18.0-2) ... Setting up libxfixes-dev:arm64 (1:6.0.0-2+b4) ... Setting up libxcb-shm0-dev:arm64 (1.17.0-2+b1) ... Setting up dbus-user-session (1.16.2-2) ... Setting up libegl-mesa0:arm64 (25.2.2-1) ... Setting up python3-packaging (25.0-1) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up libgnutls-dane0t64:arm64 (3.8.10-2) ... Setting up libharfbuzz-cairo0:arm64 (11.4.5-1) ... Setting up adwaita-icon-theme (49.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up python3-certifi (2025.1.31+ds-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up gir1.2-girepository-2.0:arm64 (1.84.0-1) ... Setting up libgssrpc4t64:arm64 (1.21.3-5) ... Setting up libpython3.13-dev:arm64 (3.13.7-1) ... Setting up python3-gi (3.50.0-6) ... Setting up libxt6t64:arm64 (1:1.2.1-1.3) ... Setting up python3-idna (3.10-1) ... Setting up libboost-regex1.83-dev:arm64 (1.83.0-5) ... Setting up python3-typing-extensions (4.15.0-1) ... Setting up libxcb-render0-dev:arm64 (1.17.0-2+b1) ... Setting up python3-numpy (1:2.2.4+ds-1.2) ... Setting up python3-urllib3 (2.5.0-1) ... Setting up libxext-dev:arm64 (2:1.3.4-1+b3) ... Setting up libthai-dev:arm64 (0.1.29-2+b1) ... Setting up libgdk-pixbuf2.0-bin (2.42.12+dfsg-5) ... Setting up libegl1:arm64 (1.7.0-1+b2) ... Setting up libharfbuzz-subset0:arm64 (11.4.5-1) ... Setting up librdmacm1t64:arm64 (56.1-1) ... Setting up libcairo-gobject2:arm64 (1.18.4-1+b1) ... Setting up libpangoft2-1.0-0:arm64 (1.56.3-2) ... Setting up libxi-dev:arm64 (2:1.8.2-1) ... Setting up libxrender-dev:arm64 (1:0.9.12-1) ... Setting up libcups2t64:arm64 (2.4.10-4) ... Setting up libngtcp2-crypto-gnutls8:arm64 (1.15.1-1) ... Setting up libhsakmt1:arm64 (6.2.4+ds-1) ... Setting up libboost-thread-dev:arm64 (1.83.0.2+b2) ... Setting up libpangocairo-1.0-0:arm64 (1.56.3-2) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-5) ... Setting up libxdamage-dev:arm64 (1:1.1.6-1+b2) ... Setting up dh-python (6.20250414) ... Setting up libgnutls28-dev:arm64 (3.8.10-2) ... Setting up libcairo-script-interpreter2:arm64 (1.18.4-1+b1) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up libfabric1:arm64 (2.1.0-1.1) ... Setting up libgio-2.0-dev-bin (2.84.4-3) ... Setting up libvulkan-dev:arm64 (1.4.321.0-1) ... Setting up gir1.2-freedesktop:arm64 (1.84.0-1) ... Setting up girepository-tools:arm64 (2.84.4-3) ... Setting up libglx-mesa0:arm64 (25.2.2-1) ... Setting up libpython3-dev:arm64 (3.13.7-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up libpangoxft-1.0-0:arm64 (1.56.3-2) ... Setting up libglx0:arm64 (1.7.0-1+b2) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up libcurl4t64:arm64 (8.16.0-1) ... Setting up librdkit1t64 (202503.1-5) ... Setting up libkdb5-10t64:arm64 (1.21.3-5) ... Setting up libfontconfig-dev:arm64 (2.15.0-2.4) ... Setting up libxcomposite-dev:arm64 (1:0.4.6-1) ... Setting up python3-charset-normalizer (3.4.3-1) ... Setting up python3.13-dev (3.13.7-1) ... Setting up libboost-iostreams1.83-dev:arm64 (1.83.0-5) ... Setting up libxcursor-dev:arm64 (1:1.2.3-1) ... Setting up python3-typeguard (4.4.4-1) ... Setting up pango1.0-tools (1.56.3-2) ... Setting up libcurl3t64-gnutls:arm64 (8.16.0-1) ... Setting up debhelper (13.26) ... Setting up dconf-service (0.49.0-1) ... Setting up libngtcp2-crypto-gnutls-dev:arm64 (1.15.1-1) ... Setting up libboost-iostreams-dev:arm64 (1.83.0.2+b2) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up gir1.2-harfbuzz-0.0:arm64 (11.4.5-1) ... Setting up librsvg2-2:arm64 (2.60.0+dfsg-1+b1) ... Setting up python3-inflect (7.5.0-1) ... Setting up gir1.2-pango-1.0:arm64 (1.56.3-2) ... Setting up libxrandr-dev:arm64 (2:1.5.4-1+b3) ... Setting up libgl1:arm64 (1.7.0-1+b2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-rdkit (202503.1-5) ... Setting up python3-dev (3.13.7-1) ... Setting up gir1.2-freedesktop-dev:arm64 (1.84.0-1) ... Setting up python3-requests (2.32.5+dfsg-1) ... Setting up libboost-python1.83-dev (1.83.0-5) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up librdkit-dev (202503.1-5) ... Setting up libxinerama-dev:arm64 (2:1.1.4-3+b4) ... Setting up libhsa-runtime64-1:arm64 (6.1.2-3) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up cmake (4.1.1+really3.31.6-2) ... Setting up libglx-dev:arm64 (1.7.0-1+b2) ... Setting up libpangomm-2.48-1t64:arm64 (2.56.1-1) ... Setting up libgl-dev:arm64 (1.7.0-1+b2) ... Setting up libxft-dev:arm64 (2.3.6-1+b4) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up libgs10-common (10.05.1~dfsg-3) ... Setting up libglib2.0-dev-bin (2.84.4-3) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up dconf-gsettings-backend:arm64 (0.49.0-1) ... Setting up libegl-dev:arm64 (1.7.0-1+b2) ... Setting up libepoxy-dev:arm64 (1.5.10-2) ... Setting up libboost-python-dev (1.83.0.2+b2) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up libgstreamer-gl1.0-0:arm64 (1.26.6-1) ... Setting up libamdhip64-5:arm64 (5.7.1-6) ... Setting up libglib2.0-dev:arm64 (2.84.4-3) ... Setting up libgraphene-1.0-dev:arm64 (1.10.8-5) ... Setting up libcairo2-dev:arm64 (1.18.4-1+b1) ... Setting up libglibmm-2.68-dev:arm64 (2.84.0-1) ... Setting up libgtk-4-common (4.20.1+ds-2) ... Setting up libcairomm-1.16-dev:arm64 (1.18.0-2) ... Setting up libgles-dev:arm64 (1.7.0-1+b2) ... Setting up libgs10:arm64 (10.05.1~dfsg-3) ... Setting up libgdk-pixbuf-2.0-dev:arm64 (2.42.12+dfsg-5) ... Setting up python-gi-dev (3.50.0-6) ... Setting up libucx0:arm64 (1.19.0+ds-1) ... Setting up libharfbuzz-dev:arm64 (11.4.5-1) ... Setting up libglvnd-dev:arm64 (1.7.0-1+b2) ... Setting up ghostscript (10.05.1~dfsg-3) ... Setting up libcurl4-gnutls-dev:arm64 (8.16.0-1) ... Setting up libpango1.0-dev:arm64 (1.56.3-2) ... Setting up libgtk-4-1:arm64 (4.20.1+ds-2) ... Setting up libpangomm-2.48-dev:arm64 (2.56.1-1) ... Setting up libegl1-mesa-dev:arm64 (25.2.2-1) ... Setting up gir1.2-gtk-4.0:arm64 (4.20.1+ds-2) ... Setting up libopenmpi40:arm64 (5.0.8-9) ... Setting up libgtk-4-dev:arm64 (4.20.1+ds-2) ... Setting up sfftw2 (2.1.5-7+b1) ... Setting up fftw2 (2.1.5-7+b1) ... Setting up sfftw-dev (2.1.5-7+b1) ... Setting up libgtkmm-4.0-0:arm64 (4.19.1-4) ... Setting up libclipper2:arm64 (2.1.20201109-2+b3) ... Setting up libgtkmm-4.0-dev:arm64 (4.19.1-4) ... Setting up fftw-dev (2.1.5-7+b1) ... Setting up libclipper-dev:arm64 (2.1.20201109-2+b3) ... Setting up libheif-plugin-dav1d:arm64 (1.20.2-2) ... Setting up libheif1:arm64 (1.20.2-2) ... Setting up libmagickcore-7.q16-10:arm64 (8:7.1.2.3+dfsg1-1) ... Setting up libheif-plugin-libde265:arm64 (1.20.2-2) ... Setting up libmagickwand-7.q16-10:arm64 (8:7.1.2.3+dfsg1-1) ... Setting up imagemagick-7.q16 (8:7.1.2.3+dfsg1-1) ... update-alternatives: using /usr/bin/compare-im7.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im7.q16 to provide /usr/bin/compare-im7 (compare-im7) in auto mode update-alternatives: using /usr/bin/animate-im7.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im7.q16 to provide /usr/bin/animate-im7 (animate-im7) in auto mode update-alternatives: using /usr/bin/convert-im7.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im7.q16 to provide /usr/bin/convert-im7 (convert-im7) in auto mode update-alternatives: using /usr/bin/composite-im7.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im7.q16 to provide /usr/bin/composite-im7 (composite-im7) in auto mode update-alternatives: using /usr/bin/conjure-im7.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im7.q16 to provide /usr/bin/conjure-im7 (conjure-im7) in auto mode update-alternatives: using /usr/bin/import-im7.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im7.q16 to provide /usr/bin/import-im7 (import-im7) in auto mode update-alternatives: using /usr/bin/identify-im7.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im7.q16 to provide /usr/bin/identify-im7 (identify-im7) in auto mode update-alternatives: using /usr/bin/stream-im7.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im7.q16 to provide /usr/bin/stream-im7 (stream-im7) in auto mode update-alternatives: using /usr/bin/display-im7.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im7.q16 to provide /usr/bin/display-im7 (display-im7) in auto mode update-alternatives: using /usr/bin/montage-im7.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im7.q16 to provide /usr/bin/montage-im7 (montage-im7) in auto mode update-alternatives: using /usr/bin/mogrify-im7.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im7.q16 to provide /usr/bin/mogrify-im7 (mogrify-im7) in auto mode update-alternatives: using /usr/bin/magick-im7.q16 to provide /usr/bin/magick (magick) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick.1.gz because associated file /usr/share/man/man1/magick-im7.q16.1.gz (of link group magick) doesn't exist update-alternatives: using /usr/bin/magick-im7.q16 to provide /usr/bin/magick-im7 (magick-im7) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick-im7.1.gz because associated file /usr/share/man/man1/magick-im7.q16.1.gz (of link group magick-im7) doesn't exist update-alternatives: using /usr/bin/magick-script-im7.q16 to provide /usr/bin/magick-script (magick-script) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick-script.1.gz because associated file /usr/share/man/man1/magick-script-im7.q16.1.gz (of link group magick-script) doesn't exist update-alternatives: using /usr/bin/magick-script-im7.q16 to provide /usr/bin/magick-script-im7 (magick-script-im7) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/magick-script-im7.1.gz because associated file /usr/share/man/man1/magick-script-im7.q16.1.gz (of link group magick-script-im7) doesn't exist Setting up imagemagick (8:7.1.2.3+dfsg1-1) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for systemd (258-1) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/coot-1.1.18+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../coot_1.1.18+dfsg-1_source.changes dpkg-buildpackage: info: source package coot dpkg-buildpackage: info: source version 1.1.18+dfsg-1 dpkg-buildpackage: info: source distribution experimental dpkg-buildpackage: info: source changed by Alex Myczko dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg' dh_auto_clean --buildsystem cmake make[1]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'macros'. libtoolize: copying file 'macros/libtool.m4' libtoolize: copying file 'macros/ltoptions.m4' libtoolize: copying file 'macros/ltsugar.m4' libtoolize: copying file 'macros/ltversion.m4' libtoolize: copying file 'macros/lt~obsolete.m4' configure.ac:41: installing './compile' configure.ac:31: installing './missing' MoleculesToTriangles/CXXClasses/Makefile.am: installing './depcomp' pyrogen/Makefile.am:146: installing './py-compile' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg' dh_auto_configure --buildsystem autoconf -- --with-enhanced-ligand-tools --disable-static --with-gemmi=/usr/lib/aarch64-linux-gnu --with-libdw --with-sound ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-enhanced-ligand-tools --disable-static --with-gemmi=/usr/lib/aarch64-linux-gnu --with-libdw --with-sound checking for a BSD-compatible install... /usr/bin/install -c checking whether sleep supports fractional seconds... yes checking filesystem timestamp resolution... 0.01 checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking xargs -n works... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking how to print strings... printf checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/aarch64-linux-gnu-ld checking if the linker (/usr/bin/aarch64-linux-gnu-ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert aarch64-unknown-linux-gnu file names to aarch64-unknown-linux-gnu format... func_convert_file_noop checking how to convert aarch64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/aarch64-linux-gnu-ld option to reload object files... -r checking for file... file checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ranlib... ranlib checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/aarch64-linux-gnu-ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/aarch64-linux-gnu-ld checking if the linker (/usr/bin/aarch64-linux-gnu-ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/aarch64-linux-gnu-ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/aarch64-linux-gnu-ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking which libtool initialization strategy to adopt... AC-PROG-LIBTOOL checking what warning flags to pass to the C compiler... -Wall -Wunused checking what language compliance flags to pass to the C compiler... checking what warning flags to pass to the C++ compiler... -Wall -Wno-unused checking what language compliance flags to pass to the C++ compiler... checking for sys/stdtypes.h... no checking for OpenMP flag of C compiler... -fopenmp checking whether g++ supports C++11 features by default... yes checking for std::thread in thread... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for glib-2.0... yes checking if this is MINGW on Windows... no checking if this is msys2 windows 64... no checking for libpng >= 1.2... yes checking for cairo >= 1.14... yes checking for SQLite3... yes checking for libdw >= 0.20... yes checking for mmdb2... yes checking for ssm... yes checking for non-prefixed single-precision FFTW2 (fftw.h)... no yes PKG_CONFIG_PATH is debug clipper: pkg-config --modversion clipper 2.1 pkg-config --libs clipper -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 checking for Clipper... yes checking for gsl... yes checking for cos in -lm... yes checking for cblas_dgemm in -lgslcblas... yes checking for gsl_blas_dgemm in -lgsl... yes checking for GLM... yes checking for gtk4 >= 4.4... yes checking for epoxy >= 1.5... yes checking for a Python interpreter with version >= 3.7... python3 checking for python3... /usr/bin/python3 checking for python3 version... 3.13 checking for python3 platform... linux checking for python3 script directory... ${prefix}/lib/python3/dist-packages checking for python3 extension module directory... ${exec_prefix}/lib/python3/dist-packages checking for python3.13... (cached) /usr/bin/python3 checking for a version of Python >= '2.1.0'... yes checking for the sysconfig Python package... yes checking for Python include path... -I/usr/include/python3.13 checking for Python library path... -L/usr/lib/aarch64-linux-gnu -lpython3.13 checking for Python site-packages path... /usr/lib/python3.13/site-packages checking for Python platform specific site-packages path... /usr/lib/python3.13/site-packages checking python extra libraries... -ldl -lm checking python extra linking flags... -Xlinker -export-dynamic -Wl,-O1 -Wl,-Bsymbolic-functions checking consistency of all components of python development environment... yes checking for pygobject-3.0 >= 3.36... yes checking for boostlib >= (102000)... yes checking whether the Boost::Thread library is available... yes checking for exit in -lboost_thread... yes checking whether the Boost::Python library is available... yes checking whether boost_python is the correct library... no checking whether boost_python313 is the correct library... yes no longer need to specify --with-enhanced-ligand-tools checking for RDKit in /usr OK, good we found RDKit in /usr checking for GEMMI... checking for gemmi/to_json.hpp... yes configure: GEMMI headers were found yes checking build type... Linux-aarch64-DebianGNU/Linux-default-gtk4 checking for sound... yes checking for vorbisfile >= 1.2... yes checking for alsa >= 1.2... yes checking for librsvg-2.0 >= 2.40... no Not using MySQL database checking for curl >= 7.9.7... 8.16.0 checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating macros/Makefile config.status: creating scheme/Makefile config.status: creating python/Makefile config.status: creating compat/Makefile config.status: creating utils/Makefile config.status: creating coot-utils/Makefile config.status: creating protein_db/Makefile config.status: creating ccp4mg-utils/Makefile config.status: creating coords/Makefile config.status: creating db-main/Makefile config.status: creating density-contour/Makefile config.status: creating angles/Makefile config.status: creating mini-mol/Makefile config.status: creating skeleton/Makefile config.status: creating ligand/Makefile config.status: creating geometry/Makefile config.status: creating ideal/Makefile config.status: creating build/Makefile config.status: creating analysis/Makefile config.status: creating high-res/Makefile config.status: creating cootaneer/Makefile config.status: creating cootilus/Makefile config.status: creating greg-tests/Makefile config.status: creating python-tests/Makefile config.status: creating lidia-core/Makefile config.status: creating doc/Makefile config.status: creating validation-graphs/Makefile config.status: creating python/coot_load_modules.py config.status: creating data/Makefile config.status: creating data/cho-models/Makefile config.status: creating data/cho-acedrg/Makefile config.status: creating data/cho-links/Makefile config.status: creating data/pdb-templates/Makefile config.status: creating data/rama-coeffs/Makefile config.status: creating data/metal/Makefile config.status: creating monomers/Makefile config.status: creating glTF/Makefile config.status: creating pixmaps/Makefile config.status: creating pixmaps/icons/Makefile config.status: creating textures/Makefile config.status: creating sounds/Makefile config.status: creating rama-data/Makefile config.status: creating man/Makefile config.status: creating reference-structures/Makefile config.status: creating api/Makefile config.status: creating pli/Makefile config.status: creating pyrogen/Makefile config.status: creating pyrogen/pyrogen config.status: creating layla/Makefile config.status: creating layla/layla config.status: creating MoleculesToTriangles/Makefile config.status: creating MoleculesToTriangles/CXXSurface/Makefile config.status: creating MoleculesToTriangles/CXXSurface/MoleculesToTrianglesCXXSurface.pc config.status: creating MoleculesToTriangles/CXXClasses/Makefile config.status: creating MoleculesToTriangles/CXXClasses/MoleculesToTrianglesCXXClasses.pc config.status: creating auxil/Makefile config.status: creating auxil/catcheck/Makefile config.status: creating auxil/rama/Makefile config.status: creating auxil/sec-str/Makefile config.status: creating auxil/strand-analysis/Makefile config.status: creating auxil/vectors/Makefile config.status: creating src/Makefile config.status: creating src/coot config.status: creating src/coot-relocatable-binaries config.status: creating ui/Makefile config.status: executing depfiles commands config.status: executing libtool commands dh_auto_configure --buildsystem cmake cd obj-aarch64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Looking for mmdb2/mmdb_defs.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libmmdb2.so -- Looking for ssm/ssm_vxedge.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libssm.so -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Looking for clipper/clipper.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-core.so -- FFTW2 libraries - /usr/lib/libsfftw.so -- - /usr/lib/libsrfftw.so -- FFTW2 header directory - /usr/include -- Performing Test _LINKING_WITH_CLIPPER_CORE -- Performing Test _LINKING_WITH_CLIPPER_CORE - Success -- Looking for clipper/clipper-mmdb.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-mmdb.so -- Looking for clipper/clipper-ccp4.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so -- Looking for clipper/clipper-contrib.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-contrib.so -- Looking for clipper/clipper-minimol.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-minimol.so -- Looking for clipper/clipper-cif.h - /usr/include -- Found CCP4: /usr/lib/aarch64-linux-gnu/libclipper-cif.so -- CCP4 include directory: /usr/include -- Looking for sgemm_ -- Looking for sgemm_ - not found -- Looking for sgemm_ -- Looking for sgemm_ - found -- Found BLAS: /usr/lib/aarch64-linux-gnu/libblas.so -- Found GSL: /usr/include (found version "2.8") -- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.3.1") -- Found PNG: /usr/lib/aarch64-linux-gnu/libpng.so (found version "1.6.50") -- Found gemmi version 0.7.1 -- Found Python: /usr/bin/python3 (found version "3.13.7") found components: Interpreter CMake Warning (dev) at CMakeLists.txt:29 (find_package): Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake --help-policy CMP0167" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Boost: /usr/lib/aarch64-linux-gnu/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: iostreams system regex thread serialization -- Found Python: /usr/bin/python3 (found suitable version "3.13.7", minimum required is "3") found components: Interpreter Development.Module Development.SABIModule -- Found ENHANCED_LIGAND_TOOLS setting - now requiring the RDKit -- Found Cairo: /usr/include/cairo CMake Warning (dev) at /usr/share/cmake-3.31/Modules/CMakeFindDependencyMacro.cmake:76 (find_package): Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake --help-policy CMP0167" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): /usr/lib/cmake/rdkit/rdkit-config.cmake:42 (find_dependency) CMakeLists.txt:68 (find_package) This warning is for project developers. Use -Wno-dev to suppress it. -- Found Boost: /usr/lib/aarch64-linux-gnu/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.83.0") found components: headers system iostreams serialization -- Configuring done (5.1s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/coot-1.1.18+dfsg/obj-aarch64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg' dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg' Making all in auxil make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil' Making all in catcheck make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/catcheck' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/catcheck' Making all in rama make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/rama' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/rama' Making all in sec-str make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/sec-str' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/sec-str' Making all in strand-analysis make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/strand-analysis' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/strand-analysis' Making all in vectors make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/vectors' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil/vectors' make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil' make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/auxil' Making all in scheme make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/scheme' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/scheme' Making all in python make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/python' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/python' Making all in macros make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/macros' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/macros' Making all in compat make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/compat' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o getopt.lo getopt.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o getopt1.lo getopt1.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c getopt1.cc -fPIC -DPIC -o .libs/getopt1.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c getopt.cc -fPIC -DPIC -o .libs/getopt.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-compat.la -rpath /usr/lib/aarch64-linux-gnu getopt.lo getopt1.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/getopt.o .libs/getopt1.o -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-compat.so.0 -o .libs/libcoot-compat.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-compat.so.0" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-compat.so" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so") libtool: link: ( cd ".libs" && rm -f "libcoot-compat.la" && ln -s "../libcoot-compat.la" "libcoot-compat.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/compat' Making all in utils make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 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-ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-fasta.cc -fPIC -DPIC -o .libs/coot-fasta.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c base64-encode-decode.cc -fPIC -DPIC -o .libs/base64-encode-decode.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c dodec.cc -fPIC -DPIC -o .libs/dodec.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c align-utils.cc -fPIC -DPIC -o .libs/align-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-utils.cc -fPIC -DPIC -o .libs/coot-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c setup-syminfo.cc -fPIC -DPIC -o .libs/setup-syminfo.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c gdk-keysyms.cc -fPIC -DPIC -o .libs/gdk-keysyms.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c win-compat.cc -fPIC -DPIC -o .libs/win-compat.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c threads.cc -fPIC -DPIC -o .libs/threads.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c hsv-rgb.cc -fPIC -DPIC -o .libs/hsv-rgb.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c pir-alignment.cc -fPIC -DPIC -o .libs/pir-alignment.o In file included from gdk-keysyms.cc:23: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from atomic-numbers.cc:22: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-fasta.cc:25: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from setup-syminfo.cc:27: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from threads.cc:27: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from pir-alignment.cc:28: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o split-indices.lo split-indices.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o radix.lo radix.cc In file included from coot-utils.cc:59: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o logging.lo logging.cc In file included from hsv-rgb.cc:29: coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c split-indices.cc -fPIC -DPIC -o .libs/split-indices.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c radix.cc -fPIC -DPIC -o .libs/radix.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o insertion-sort.lo insertion-sort.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c logging.cc -fPIC -DPIC -o .libs/logging.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c insertion-sort.cc -fPIC -DPIC -o .libs/insertion-sort.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o colour-holder.lo colour-holder.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c colour-holder.cc -fPIC -DPIC -o .libs/colour-holder.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o next-file-version.lo next-file-version.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c next-file-version.cc -fPIC -DPIC -o .libs/next-file-version.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o static-logging.lo static-logging.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DBACKWARD_HAS_DW=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c static-logging.cc -fPIC -DPIC -o .libs/static-logging.o /bin/bash ../libtool --tag=CXX --mode=link g++ -DCLIPPER_HAS_TOP8000 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-utils.la -rpath /usr/lib/aarch64-linux-gnu coot-utils.lo coot-fasta.lo atomic-numbers.lo setup-syminfo.lo gdk-keysyms.lo hsv-rgb.lo dodec.lo win-compat.lo threads.lo align-utils.lo base64-encode-decode.lo pir-alignment.lo split-indices.lo radix.lo logging.lo insertion-sort.lo colour-holder.lo next-file-version.lo static-logging.lo -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -ldw -lelf libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/coot-utils.o .libs/coot-fasta.o .libs/atomic-numbers.o .libs/setup-syminfo.o .libs/gdk-keysyms.o .libs/hsv-rgb.o .libs/dodec.o .libs/win-compat.o .libs/threads.o .libs/align-utils.o .libs/base64-encode-decode.o .libs/pir-alignment.o .libs/split-indices.o .libs/radix.o .libs/logging.o .libs/insertion-sort.o .libs/colour-holder.o .libs/next-file-version.o .libs/static-logging.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -ldw -lelf -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-utils.so.0 -o .libs/libcoot-utils.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libdw.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libelf.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-utils.so.0" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-utils.so" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so") libtool: link: ( cd ".libs" && rm -f "libcoot-utils.la" && ln -s "../libcoot-utils.la" "libcoot-utils.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/utils' Making all in protein_db make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/protein_db' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o protein_db.lo protein_db.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o protein_db_utils.lo protein_db_utils.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o rna_db.lo rna_db.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c protein_db_utils.cpp -fPIC -DPIC -o .libs/protein_db_utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c protein_db.cpp -fPIC -DPIC -o .libs/protein_db.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rna_db.cpp -fPIC -DPIC -o .libs/rna_db.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-protein-db.la -rpath /usr/lib/aarch64-linux-gnu protein_db.lo protein_db_utils.lo rna_db.lo -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/protein_db.o .libs/protein_db_utils.o .libs/rna_db.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-protein-db.so.0 -o .libs/libcoot-protein-db.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so.0" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so") libtool: link: ( cd ".libs" && rm -f "libcoot-protein-db.la" && ln -s "../libcoot-protein-db.la" "libcoot-protein-db.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/protein_db' Making all in mini-mol make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/mini-mol' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mini-mol.lo mini-mol.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mini-mol-utils.lo mini-mol-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o atom-quads.lo atom-quads.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mini-mol-utils.cc -fPIC -DPIC -o .libs/mini-mol-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c atom-quads.cc -fPIC -DPIC -o .libs/atom-quads.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mini-mol.cc -fPIC -DPIC -o .libs/mini-mol.o In file included from mini-mol.hh:29, from mini-mol-utils.hh:22, from mini-mol-utils.cc:22: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from mini-mol.hh:29, from mini-mol.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ mini-mol.cc: In member function 'std::pair coot::minimol::molecule::get_pos() const': mini-mol.cc:1670:36: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1670 | coot::minimol::molecule::get_pos() const { | ^~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-mini-mol.la -rpath /usr/lib/aarch64-linux-gnu mini-mol.lo mini-mol-utils.lo atom-quads.lo ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-mini-mol.so.0 -o .libs/libcoot-mini-mol.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so.0" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so") libtool: link: ( cd ".libs" && rm -f "libcoot-mini-mol.la" && ln -s "../libcoot-mini-mol.la" "libcoot-mini-mol.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/mini-mol' Making all in geometry make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/geometry' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cif-parse.lo cif-parse.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o protein-geometry.lo protein-geometry.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o protein-geometry-mmdb.lo protein-geometry-mmdb.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o read-sbase.lo read-sbase.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o energy-lib.lo energy-lib.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mol-utils.lo mol-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o dictionary-residue.lo dictionary-residue.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time 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-ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c link.cc -fPIC -DPIC -o .libs/link.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c srs-interface.cc -fPIC -DPIC -o .libs/srs-interface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c dict-utils.cc -fPIC -DPIC -o .libs/dict-utils.o In file included from energy-lib.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from srs-interface.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from read-sbase.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o protein-donor-acceptors.lo protein-donor-acceptors.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c protein-donor-acceptors.cc -fPIC -DPIC -o .libs/protein-donor-acceptors.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o lbg-graph.lo lbg-graph.cc In file included from glyco-tools.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from chem_mods.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c lbg-graph.cc -fPIC -DPIC -o .libs/lbg-graph.o In file included from dict-utils.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cif-parse.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from dictionary-residue.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from link.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from protein-geometry.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o dreiding.lo dreiding.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c dreiding.cc -fPIC -DPIC -o .libs/dreiding.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o main-chain.lo main-chain.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c main-chain.cc -fPIC -DPIC -o .libs/main-chain.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o residue-and-atom-specs.lo residue-and-atom-specs.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c residue-and-atom-specs.cc -fPIC -DPIC -o .libs/residue-and-atom-specs.o In file included from residue-and-atom-specs.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o intercept-3GP.lo intercept-3GP.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c intercept-3GP.cc -fPIC -DPIC -o .libs/intercept-3GP.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mol-utils-2.lo mol-utils-2.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o hydrophobic.lo hydrophobic.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mol-utils-2.cc -fPIC -DPIC -o .libs/mol-utils-2.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c hydrophobic.cc -fPIC -DPIC -o .libs/hydrophobic.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cif-parse-link.lo cif-parse-link.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cif-parse-mon-lib.lo cif-parse-mon-lib.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cif-parse-link.cc -fPIC -DPIC -o .libs/cif-parse-link.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cif-parse-mon-lib.cc -fPIC -DPIC -o .libs/cif-parse-mon-lib.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o read-metals-json.lo read-metals-json.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DXDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c read-metals-json.cc -fPIC -DPIC -o .libs/read-metals-json.o In file included from ../src/json.hpp:39, from read-metals-json.cc:30: /usr/include/c++/15/ciso646:49:6: warning: #warning " is not a standard header since C++20, use to detect implementation-specific macros" [-Wcpp] 49 | # warning " is not a standard header since C++20, use to detect implementation-specific macros" | ^~~~~~~ In file included from cif-parse-mon-lib.cc:25: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from read-metals-json.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cif-parse-link.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -DXDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-geometry.la -rpath /usr/lib/aarch64-linux-gnu cif-parse.lo protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo mol-utils.lo dictionary-residue.lo link.lo glyco-tools.lo dict-utils.lo chem_mods.lo srs-interface.lo protein-donor-acceptors.lo lbg-graph.lo dreiding.lo main-chain.lo residue-and-atom-specs.lo intercept-3GP.lo mol-utils-2.lo hydrophobic.lo cif-parse-link.lo cif-parse-mon-lib.lo read-metals-json.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/cif-parse.o .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o .libs/mol-utils.o .libs/dictionary-residue.o .libs/link.o .libs/glyco-tools.o .libs/dict-utils.o .libs/chem_mods.o .libs/srs-interface.o .libs/protein-donor-acceptors.o .libs/lbg-graph.o .libs/dreiding.o .libs/main-chain.o .libs/residue-and-atom-specs.o .libs/intercept-3GP.o .libs/mol-utils-2.o .libs/hydrophobic.o .libs/cif-parse-link.o .libs/cif-parse-mon-lib.o .libs/read-metals-json.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/compat/.libs ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-geometry.so.0 -o .libs/libcoot-geometry.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so.0" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so") libtool: link: ( cd ".libs" && rm -f "libcoot-geometry.la" && ln -s "../libcoot-geometry.la" "libcoot-geometry.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/geometry' Making all in lidia-core make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/lidia-core' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 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-DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_SQLITE3 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o lbg-molfile.lo lbg-molfile.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_SQLITE3 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong 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-ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c chemical-feature-clusters.cc -fPIC -DPIC -o .libs/chemical-feature-clusters.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_SQLITE3 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c get-residue.cc -fPIC -DPIC -o .libs/get-residue.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_SQLITE3 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o svg-molecule.lo svg-molecule.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_SQLITE3 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c svg-molecule.cc -fPIC -DPIC -o .libs/svg-molecule.o In file included from lig-build.cc:25: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from lbg-molfile.hh:32, from lbg-molfile.cc:27: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from rdkit-interface.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from atom-types.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from chemical-feature-clusters.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cod-types.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from svg-molecule.hh:29, from svg-molecule.cc:29: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from lbg-molfile.hh:32, from rdkit-interface.hh:29, from rdkit-interface.cc:27: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from lbg-molfile.hh:32, from rdkit-interface.hh:29, from cod-atom-type-t.cc:28: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from lbg-molfile.hh:32, from rdkit-interface.hh:29, from atom-types.cc:30: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cod-atom-type-t.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ cod-atom-type-t.cc: In constructor 'cod::atom_level_2_type::atom_level_2_type(const RDKit::Atom*, const RDKit::ROMol&)': cod-atom-type-t.cc:109:51: warning: 'int RDKit::Atom::getExplicitValence() const' is deprecated: please use getValence(true) [-Wdeprecated-declarations] 109 | int e_valence = base_atom_p->getExplicitValence(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/rdkit/GraphMol/RDKitBase.h:23, from use-rdkit.hh:41, from rdkit-interface.hh:25: /usr/include/rdkit/GraphMol/Atom.h:194:53: note: declared here 194 | [[deprecated("please use getValence(true)")]] int getExplicitValence() const; | ^~~~~~~~~~~~~~~~~~ cod-atom-type-t.cc: In constructor 'cod::atom_level_2_type::atom_level_2_component_type::atom_level_2_component_type(const RDKit::Atom*, const RDKit::ROMol&)': cod-atom-type-t.cc:494:58: warning: 'int RDKit::Atom::getExplicitValence() const' is deprecated: please use getValence(true) [-Wdeprecated-declarations] 494 | int n_extra_elect = at_neighb_n->getExplicitValence() - at_neighb_n->getDegree() + at_neighb_n->getFormalCharge(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/rdkit/GraphMol/Atom.h:194:53: note: declared here 194 | [[deprecated("please use getValence(true)")]] int getExplicitValence() const; | ^~~~~~~~~~~~~~~~~~ cod-atom-type-t.cc:502:42: warning: 'int RDKit::Atom::getExplicitValence() const' is deprecated: please use getValence(true) [-Wdeprecated-declarations] 502 | int e_valence = at->getExplicitValence(); | ~~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/rdkit/GraphMol/Atom.h:194:53: note: declared here 194 | [[deprecated("please use getValence(true)")]] int getExplicitValence() const; | ^~~~~~~~~~~~~~~~~~ rdkit-interface.cc: In function 'void coot::delete_excessive_hydrogens(RDKit::RWMol*)': rdkit-interface.cc:2277:50: warning: 'int RDKit::Atom::getExplicitValence() const' is deprecated: please use getValence(true) [-Wdeprecated-declarations] 2277 | int e_valence = at_p->getExplicitValence(); | ~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/rdkit/GraphMol/RDKitBase.h:23, from use-rdkit.hh:41, from rdkit-interface.hh:25: /usr/include/rdkit/GraphMol/Atom.h:194:53: note: declared here 194 | [[deprecated("please use getValence(true)")]] int getExplicitValence() const; | ^~~~~~~~~~~~~~~~~~ In file included from lbg-molfile.hh:32, from rdkit-interface.hh:29, from chemical-feature-clusters.cc:33: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ rdkit-interface.cc: In function 'void coot::assign_formal_charges(RDKit::RWMol*)': rdkit-interface.cc:2329:67: warning: 'int RDKit::Atom::getExplicitValence() const' is deprecated: please use getValence(true) [-Wdeprecated-declarations] 2329 | << " with valence " << at_p->getExplicitValence() | ~~~~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/rdkit/GraphMol/Atom.h:194:53: note: declared here 194 | [[deprecated("please use getValence(true)")]] int getExplicitValence() const; | ^~~~~~~~~~~~~~~~~~ rdkit-interface.cc:2334:50: warning: 'int RDKit::Atom::getExplicitValence() const' is deprecated: please use getValence(true) [-Wdeprecated-declarations] 2334 | int e_valence = at_p->getExplicitValence(); | ~~~~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/rdkit/GraphMol/Atom.h:194:53: note: declared here 194 | [[deprecated("please use getValence(true)")]] int getExplicitValence() const; | ^~~~~~~~~~~~~~~~~~ In file included from lbg-molfile.hh:32, from rdkit-interface.hh:29, from cod-atom-types.cc:28: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from lbg-molfile.hh:32, from rdkit-interface.hh:29, from bond-record-container-t.cc:28: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cod-atom-types.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from bond-record-container-t.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from lbg-molfile.hh:32, from rdkit-interface.hh:29, from cod-types.cc:27: lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-lidia-core.la -rpath /usr/lib/aarch64-linux-gnu lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo atom-types.lo bond-record-container-t.lo cod-atom-type-t.lo cod-atom-types.lo bond-table-record-t.lo chemical-feature-clusters.lo get-residue.lo svg-molecule.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu -lsqlite3 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/lbg-shared.o .libs/lbg-molfile.o .libs/lig-build.o .libs/rdkit-interface.o .libs/cod-types.o .libs/atom-types.o .libs/bond-record-container-t.o .libs/cod-atom-type-t.o .libs/cod-atom-types.o .libs/bond-table-record-t.o .libs/chemical-feature-clusters.o .libs/get-residue.o .libs/svg-molecule.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu -lsqlite3 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-lidia-core.so.0 -o .libs/libcoot-lidia-core.so.0.0.0 /usr/lib/aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitAlignment.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 46 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so.0" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so") libtool: link: ( cd ".libs" && rm -f "libcoot-lidia-core.la" && ln -s "../libcoot-lidia-core.la" "libcoot-lidia-core.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/lidia-core' Making all in coot-utils make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/coot-utils' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mmrrcc.o mmrrcc.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit 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-DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o peak-search.lo peak-search.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 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peak-search-from-list.lo peak-search-from-list.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit 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compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 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-DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 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-I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c exp-fit.cc -fPIC -DPIC -o .libs/exp-fit.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 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"-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c find-water-baddies.cc -fPIC -DPIC -o .libs/find-water-baddies.o In file included from mmrrcc.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from maps-spherical.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from pepflip-using-difference-map.cc:28: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o diff-diff-map-peaks.lo diff-diff-map-peaks.cc In file included from coot-map-utils.hh:33, from blob-line.cc:27: coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from coot-map-utils.hh:33, from find-water-baddies.cc:29: coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c diff-diff-map-peaks.cc -fPIC -DPIC -o .libs/diff-diff-map-peaks.o In file included from coot-map-utils.hh:33, from trim.cc:21: coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mini-texture.lo mini-texture.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mini-texture.cc -fPIC -DPIC -o .libs/mini-texture.o In file included from coot-map-utils.cc:43: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o positron.lo positron.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o texture-as-floats.lo texture-as-floats.cc coot-map-utils.cc: In function 'std::pair coot::util::mean_and_variance(const clipper::Xmap&)': coot-map-utils.cc:964:63: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 964 | coot::util::mean_and_variance(const clipper::Xmap &xmap) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c positron.cc -fPIC -DPIC -o .libs/positron.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c texture-as-floats.cc -fPIC -DPIC -o .libs/texture-as-floats.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o merge-C-and-N-terminii.lo merge-C-and-N-terminii.cc In file included from slurp-map.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-map-utils.cc:3839: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c merge-C-and-N-terminii.cc -fPIC -DPIC -o .libs/merge-C-and-N-terminii.o In file included from positron.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o born.lo born.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c born.cc -fPIC -DPIC -o .libs/born.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-coord-utils.lo coot-coord-utils.cc In file included from coot-map-utils.hh:33, from texture-as-floats.cc:27: coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from merge-C-and-N-terminii.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-coord-utils.cc -fPIC -DPIC -o .libs/coot-coord-utils.o In file included from /usr/include/clipper/core/hkl_datatypes.h:49, from /usr/include/clipper/core/hkl_compute.h:48, from coot-map-utils.cc:34: /usr/include/clipper/core/hkl_data.h: In instantiation of 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_phi]': coot-map-utils.cc:663:39: required from here 663 | fphis_out[hri] = fphis_in[hkl]; | ^ /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 478 | template T HKL_data::operator[] (const HKL& hkl) const | ^~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/algorithm:62, from coot-map-utils.cc:23: /usr/include/c++/15/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = const double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': coot-map-utils.cc:4494:45: required from here 4494 | data.push_back(std::make_pair(A_data[i].first, y)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]': coot-map-utils.cc:4579:87: required from here 4579 | (*f_data_hkl_accum_p)[chkl][imap] = std::make_pair(fphis[hri].f(), fphis[hri].phi()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': coot-map-utils.cc:4734:69: required from here 4734 | data.push_back(std::make_pair(static_cast(i), static_cast(r))); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-coord-utils-nucleotides.lo coot-coord-utils-nucleotides.cc In file included from ../coot-utils/coot-map-utils.hh:33, from mini-texture.cc:28: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-coord-utils-nucleotides.cc -fPIC -DPIC -o .libs/coot-coord-utils-nucleotides.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-rama.lo coot-rama.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-rama.cc -fPIC -DPIC -o .libs/coot-rama.o In file included from coot-coord-utils.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-h-bonds.lo coot-h-bonds.cc In file included from coot-coord-utils-nucleotides.cc:25: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-h-bonds.cc -fPIC -DPIC -o .libs/coot-h-bonds.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o hole.lo hole.cc In file included from coot-rama.cc:24: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c hole.cc -fPIC -DPIC -o .libs/hole.o In file included from /usr/include/clipper/core/container_hkl.h:50, from /usr/include/clipper/ccp4/ccp4_mtz_types.h:49, from /usr/include/clipper/ccp4/ccp4_mtz_io.h:49, from born.cc:4: /usr/include/clipper/core/hkl_data.h: In instantiation of 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_phi]': born.cc:39:61: required from here 39 | const clipper::data32::F_phi &f = fphi[ih.hkl()]; | ^ /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 478 | template T HKL_data::operator[] (const HKL& hkl) const | ^~~~~~~~~~~ /usr/include/clipper/core/hkl_data.h: In member function 'void clipper::HKL_data::compute(const clipper::HKL_data&, const clipper::HKL_data&, const C&) [with S1 = clipper::datatypes::F_sigF; S2 = clipper::datatypes::Phi_fom; C = clipper::datatypes::Compute_fphi_from_fsigf_phifom; T = clipper::datatypes::F_phi]': /usr/include/clipper/core/hkl_data.h:311:96: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 311 | { for (HKL_info::HKL_reference_index ih=parent_hkl_info->first(); !ih.last(); ih.next()) list[ih.index()] = op( ih, src1[ih], src2[ih] ); } | ^~~~ coot-map-utils.cc: In function 'std::pair coot::util::mean_and_variance(const clipper::Xmap&)': coot-map-utils.cc:964:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 964 | coot::util::mean_and_variance(const clipper::Xmap &xmap) { | ^~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o read-sm-cif.lo read-sm-cif.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c read-sm-cif.cc -fPIC -DPIC -o .libs/read-sm-cif.o In file included from hole.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ coot-map-utils.cc: In lambda function: coot-map-utils.cc:4734:69: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 4734 | data.push_back(std::make_pair(static_cast(i), static_cast(r))); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coot-map-utils.cc: In function 'void coot::util::reverse_map(clipper::Xmap*)': coot-map-utils.cc:4827:55: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 4827 | std::pair mv = mean_and_variance(xmap); | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o bonded-pairs.lo bonded-pairs.cc hole.cc: In member function 'std::pair coot::hole::optimize_point(const clipper::Coord_orth&, int)': hole.cc:253:69: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 253 | coot::hole::optimize_point(const clipper::Coord_orth &pt, int selhnd) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c bonded-pairs.cc -fPIC -DPIC -o .libs/bonded-pairs.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o helix-analysis.lo helix-analysis.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c helix-analysis.cc -fPIC -DPIC -o .libs/helix-analysis.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o elastic.lo elastic.cc In file included from read-sm-cif.cc:43: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c elastic.cc -fPIC -DPIC -o .libs/elastic.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o glyco-torsions.lo glyco-torsions.cc In file included from /usr/include/clipper/core/clipper_instance.h:49, from read-sm-cif.cc:32: /usr/include/clipper/core/hkl_data.h: In instantiation of 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_sigF]': read-sm-cif.cc:1096:38: required from here 1096 | if (!my_fsigf[ih.hkl()].missing()) { | ^ /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_sigF' when C++17 is enabled changed to match C++14 in GCC 10.1 478 | template T HKL_data::operator[] (const HKL& hkl) const | ^~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c glyco-torsions.cc -fPIC -DPIC -o .libs/glyco-torsions.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-least-squares.lo coot-least-squares.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-least-squares.cc -fPIC -DPIC -o .libs/coot-least-squares.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o atom-overlaps.lo atom-overlaps.cc In file included from elastic.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o reduce.lo reduce.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c atom-overlaps.cc -fPIC -DPIC -o .libs/atom-overlaps.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c reduce.cc -fPIC -DPIC -o .libs/reduce.o In file included from glyco-torsions.cc:43: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o atom-selection-container.lo atom-selection-container.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o contact-info.lo contact-info.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c atom-selection-container.cc -fPIC -DPIC -o .libs/atom-selection-container.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c contact-info.cc -fPIC -DPIC -o .libs/contact-info.o In file included from atom-overlaps.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from reduce.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from atom-selection-container.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ coot-map-utils.cc: In function 'clipper::Xmap coot::util::real_space_zero_dose_extrapolation(const std::vector*>&, const clipper::Xmap&)': coot-map-utils.cc:4800:46: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 4800 | f_values.push_back(std::make_pair(static_cast(imap), static_cast(f))); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-shelx-ins.lo coot-shelx-ins.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-shelx-ins.cc -fPIC -DPIC -o .libs/coot-shelx-ins.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o secondary-structure-headers.lo secondary-structure-headers.cc coot-map-utils.cc: In lambda function: coot-map-utils.cc:4579:87: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 4579 | (*f_data_hkl_accum_p)[chkl][imap] = std::make_pair(fphis[hri].f(), fphis[hri].phi()); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from atom-selection-container.cc:33: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c secondary-structure-headers.cc -fPIC -DPIC -o .libs/secondary-structure-headers.o In file included from atom-selection-container.cc:36: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o plane-utils.lo plane-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" 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-Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c plane-utils.cc -fPIC -DPIC -o .libs/plane-utils.o In file included from coot-shelx-ins.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 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-DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c merge-atom-selections.cc -fPIC -DPIC -o .libs/merge-atom-selections.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o contacts-by-bricks.lo contacts-by-bricks.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c contacts-by-bricks.cc -fPIC -DPIC -o .libs/contacts-by-bricks.o In file included from merge-atom-selections.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o stack-and-pair.lo stack-and-pair.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c stack-and-pair.cc -fPIC -DPIC -o .libs/stack-and-pair.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o fast-eigens.lo fast-eigens.cc In file included from contacts-by-bricks.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c fast-eigens.cc -fPIC -DPIC -o .libs/fast-eigens.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o strand-fragments.lo strand-fragments.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c strand-fragments.cc -fPIC -DPIC -o .libs/strand-fragments.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o sfcalc-genmap.lo sfcalc-genmap.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c sfcalc-genmap.cc -fPIC -DPIC -o .libs/sfcalc-genmap.o In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from lidia-core-functions.cc:29: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cablam-markup.lo cablam-markup.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cablam-markup.cc -fPIC -DPIC -o .libs/cablam-markup.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot_shiftfield.lo coot_shiftfield.cpp In file included from cablam-markup.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot_shiftfield.cpp -fPIC -DPIC -o .libs/coot_shiftfield.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o shiftfield.lo shiftfield.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c shiftfield.cpp -fPIC -DPIC -o .libs/shiftfield.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o fib-sphere.lo fib-sphere.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c fib-sphere.cc -fPIC -DPIC -o .libs/fib-sphere.o In file included from /usr/include/clipper/core/container_hkl.h:50, from /usr/include/clipper/clipper.h:7, from sfcalc-genmap.cc:30: /usr/include/clipper/core/hkl_data.h: In member function 'void clipper::HKL_data::compute(const clipper::HKL_data&, const C&) [with S = clipper::datatypes::Phi_fom; C = clipper::datatypes::Compute_abcd_from_phifom; T = clipper::datatypes::ABCD]': /usr/include/clipper/core/hkl_data.h:308:96: note: parameter passing for argument of type 'clipper::datatypes::ABCD' when C++17 is enabled changed to match C++14 in GCC 10.1 308 | { for (HKL_info::HKL_reference_index ih=parent_hkl_info->first(); !ih.last(); ih.next()) list[ih.index()] = op( ih, src[ih] ); } | ^~~~ In file included from /usr/include/clipper/core/container_hkl.h:50, from /usr/include/clipper/clipper.h:7, from coot_shiftfield.h:31, from coot_shiftfield.cpp:27: /usr/include/clipper/core/hkl_data.h: In instantiation of 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_sigF]': coot_shiftfield.cpp:153:81: required from here 153 | for ( HRI ih = fo.first(); !ih.last(); ih.next() ) fo_all[ih] = fo0[ih.hkl()]; | ^ /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_sigF' when C++17 is enabled changed to match C++14 in GCC 10.1 478 | template T HKL_data::operator[] (const HKL& hkl) const | ^~~~~~~~~~~ /usr/include/clipper/core/hkl_data.h: In instantiation of 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_phi]': coot_shiftfield.cpp:209:29: required from here 209 | fphi[ih] = fc[ih.hkl()]; | ^ /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 478 | template T HKL_data::operator[] (const HKL& hkl) const | ^~~~~~~~~~~ In file included from /usr/include/clipper/core/container_hkl.h:50, from /usr/include/clipper/clipper.h:7, from shiftfield.h:31, from shiftfield.cpp:27: /usr/include/clipper/core/hkl_data.h: In member function 'void clipper::HKL_data::compute(const clipper::HKL_data&, const C&) [with S = clipper::datatypes::F_phi; C = clipper::datatypes::Compute_scale_u_aniso >; T = clipper::datatypes::F_phi]': /usr/include/clipper/core/hkl_data.h:308:96: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 308 | { for (HKL_info::HKL_reference_index ih=parent_hkl_info->first(); !ih.last(); ih.next()) list[ih.index()] = op( ih, src[ih] ); } | ^~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o polar-atoms.lo polar-atoms.cc coot_shiftfield.cpp: In function 'void coot::shift_field_b_factor_refinement(const clipper::HKL_data >&, const clipper::HKL_data&, mmdb::Manager*, int)': coot_shiftfield.cpp:153:67: note: parameter passing for argument of type 'clipper::datatypes::F_sigF' when C++17 is enabled changed to match C++14 in GCC 10.1 153 | for ( HRI ih = fo.first(); !ih.last(); ih.next() ) fo_all[ih] = fo0[ih.hkl()]; coot_shiftfield.cpp:209:16: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 209 | fphi[ih] = fc[ih.hkl()]; /usr/include/clipper/core/hkl_data.h: In member function 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_sigF]': /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_sigF' when C++17 is enabled changed to match C++14 in GCC 10.1 478 | template T HKL_data::operator[] (const HKL& hkl) const | ^~~~~~~~~~~ /usr/include/clipper/core/hkl_data.h: In member function 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_phi]': /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c polar-atoms.cc -fPIC -DPIC -o .libs/polar-atoms.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o 3d-texture.lo 3d-texture.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o merge-molecules.lo merge-molecules.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c 3d-texture.cc -fPIC -DPIC -o .libs/3d-texture.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c merge-molecules.cc -fPIC -DPIC -o .libs/merge-molecules.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o fragment-container.lo fragment-container.cc /usr/include/clipper/core/hkl_data.h: In member function 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_sigF]': /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_sigF' when C++17 is enabled changed to match C++14 in GCC 10.1 /usr/include/clipper/core/hkl_data.h: In member function 'T clipper::HKL_data::operator[](const clipper::HKL&) const [with T = clipper::datatypes::F_phi]': /usr/include/clipper/core/hkl_data.h:478:23: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c fragment-container.cc -fPIC -DPIC -o .libs/fragment-container.o coot-map-utils.cc: In function 'bool coot::util::map_fill_from_mtz(clipper::Xmap*, std::string, std::string, std::string, std::string, short int, float, short int, float)': coot-map-utils.cc:66:1: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 66 | coot::util::map_fill_from_mtz(clipper::Xmap *xmap, | ^~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mutate.lo mutate.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mutate.cc -fPIC -DPIC -o .libs/mutate.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cylinder.lo cylinder.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cylinder.cc -fPIC -DPIC -o .libs/cylinder.o coot_shiftfield.cpp: In function 'void coot::shift_field_b_factor_refinement(const clipper::HKL_data >&, const clipper::HKL_data&, mmdb::Manager*, int)': coot_shiftfield.cpp:121:1: note: parameter passing for argument of type 'clipper::datatypes::F_sigF' when C++17 is enabled changed to match C++14 in GCC 10.1 121 | coot::shift_field_b_factor_refinement(const clipper::HKL_data< clipper::datatypes::F_sigF > &fo0, | ^~~~ coot_shiftfield.cpp:121:1: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 coot_shiftfield.cpp:121:1: note: parameter passing for argument of type 'clipper::datatypes::F_sigF' when C++17 is enabled changed to match C++14 in GCC 10.1 coot_shiftfield.cpp:209:29: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 209 | fphi[ih] = fc[ih.hkl()]; | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cylinder-with-rotation-translation.lo cylinder-with-rotation-translation.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o oct.lo oct.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cylinder-with-rotation-translation.cc -fPIC -DPIC -o .libs/cylinder-with-rotation-translation.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o prideout-octasphere.lo prideout-octasphere.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c oct.cc -fPIC -DPIC -o .libs/oct.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o simple-mesh.lo simple-mesh.cc In file included from mutate.cc:644: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c prideout-octasphere.cc -fPIC -DPIC -o .libs/prideout-octasphere.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c simple-mesh.cc -fPIC -DPIC -o .libs/simple-mesh.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o shapes.lo shapes.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 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-ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c pae.cc -fPIC -DPIC -o .libs/pae.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o gl-matrix.lo gl-matrix.cc In file included from json.hpp:39, from tiny_gltf.h:1540, from gltf-export.cc:36: /usr/include/c++/15/ciso646:49:6: warning: #warning " is not a standard header since C++20, use to detect implementation-specific macros" [-Wcpp] 49 | # warning " is not a standard header since C++20, use to detect implementation-specific macros" | ^~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 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-DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-coord-lsq.lo coot-coord-lsq.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-coord-extras.cc -fPIC -DPIC -o .libs/coot-coord-extras.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-coord-lsq.cc -fPIC -DPIC -o .libs/coot-coord-lsq.o In file included from coot-coord-lsq.cc:23: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from coot-align.cc:35: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-tree-extras.lo coot-tree-extras.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-tree-extras.cc -fPIC -DPIC -o .libs/coot-tree-extras.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o water-coordination.lo water-coordination.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c water-coordination.cc -fPIC -DPIC -o .libs/water-coordination.o In file included from coot-coord-extras.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o lsq-improve.lo lsq-improve.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c lsq-improve.cc -fPIC -DPIC -o .libs/lsq-improve.o In file included from coot-tree-extras.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-coord-utils-glyco.lo coot-coord-utils-glyco.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-coord-utils-glyco.cc -fPIC -DPIC -o .libs/coot-coord-utils-glyco.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o jed-flip.lo jed-flip.cc In file included from coot-coord-utils-glyco.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cfc.lo cfc.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c jed-flip.cc -fPIC -DPIC -o .libs/jed-flip.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cfc.cc -fPIC -DPIC -o .libs/cfc.o In file included from ../coot-utils/json.hpp:39, from cfc.cc:10: /usr/include/c++/15/ciso646:49:6: warning: #warning " is not a standard header since C++20, use to detect implementation-specific macros" [-Wcpp] 49 | # warning " is not a standard header since C++20, use to detect implementation-specific macros" | ^~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-map-heavy.lo coot-map-heavy.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-map-heavy.cc -fPIC -DPIC -o .libs/coot-map-heavy.o In file included from ../mini-mol/mini-mol.hh:29, from coot-coord-extras.hh:33, from jed-flip.hh:32, from jed-flip.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-fffear.lo coot-fffear.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-fffear.cc -fPIC -DPIC -o .libs/coot-fffear.o In file included from coot-map-heavy.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from coot-map-heavy.hh:29, from coot-fffear.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o spherical-harmonics.lo spherical-harmonics.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c spherical-harmonics.cc -fPIC -DPIC -o .libs/spherical-harmonics.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o segmap.lo segmap.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c segmap.cc -fPIC -DPIC -o .libs/segmap.o coot-fffear.cc: In constructor 'coot::util::fffear_search::fffear_search(mmdb::Manager*, int, const clipper::Xmap&, float, bool)': coot-fffear.cc:159:70: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 159 | std::pair mv = coot::util::mean_and_variance(xmap); | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from cfc.cc:12: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from /usr/include/aarch64-linux-gnu/c++/15/bits/c++allocator.h:33, from /usr/include/c++/15/bits/allocator.h:46, from /usr/include/c++/15/string:45, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/istream:42, from /usr/include/c++/15/fstream:42, from cfc.cc:5: In member function 'void std::__new_allocator<_Tp>::deallocate(_Tp*, size_type) [with _Tp = std::__cxx11::basic_string]', inlined from 'constexpr void std::allocator< >::deallocate(_Tp*, std::size_t) [with _Tp = std::__cxx11::basic_string]' at /usr/include/c++/15/bits/allocator.h:215:35, inlined from 'static constexpr void std::allocator_traits >::deallocate(allocator_type&, pointer, size_type) [with _Tp = std::__cxx11::basic_string]' at /usr/include/c++/15/bits/alloc_traits.h:649:23, inlined from 'constexpr void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:396:19, inlined from 'constexpr void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:392:7, inlined from 'constexpr std::_Vector_base<_Tp, _Alloc>::~_Vector_base() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:375:15, inlined from 'constexpr std::vector<_Tp, _Alloc>::~vector() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:805:7, inlined from 'cfc::chemical_feature_clustering(const std::vector&, const coot::protein_geometry&)::' at cfc.cc:61:4, inlined from 'std::pair, std::vector > > cfc::chemical_feature_clustering(const std::vector&, const coot::protein_geometry&)' at cfc.cc:549:72: /usr/include/c++/15/bits/new_allocator.h:172:66: warning: 'void operator delete(void*, std::size_t)' called on pointer '__result' with nonzero offset 32 [-Wfree-nonheap-object] 172 | _GLIBCXX_OPERATOR_DELETE(_GLIBCXX_SIZED_DEALLOC(__p, __n)); | ^ cfc.cc: In function 'std::pair, std::vector > > cfc::chemical_feature_clustering(const std::vector&, const coot::protein_geometry&)': cfc.cc:19:1: note: declared here 19 | cfc::chemical_feature_clustering(const std::vector &mol_infos, | ^~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-coord-utils.la -rpath /usr/lib/aarch64-linux-gnu coot-coord-utils.lo coot-coord-utils-nucleotides.lo coot-rama.lo coot-h-bonds.lo hole.lo read-sm-cif.lo bonded-pairs.lo helix-analysis.lo elastic.lo glyco-torsions.lo coot-least-squares.lo atom-overlaps.lo reduce.lo atom-selection-container.lo contact-info.lo coot-shelx-ins.lo secondary-structure-headers.lo plane-utils.lo c-beta-deviations.lo lidia-core-functions.lo atom-tools.lo bonded-atoms.lo bricks.lo helix-like.lo merge-atom-selections.lo contacts-by-bricks.lo stack-and-pair.lo fast-eigens.lo strand-fragments.lo sfcalc-genmap.lo cablam-markup.lo coot_shiftfield.lo shiftfield.lo fib-sphere.lo polar-atoms.lo 3d-texture.lo merge-molecules.lo fragment-container.lo mutate.lo cylinder.lo cylinder-with-rotation-translation.lo oct.lo prideout-octasphere.lo simple-mesh.lo shapes.lo cmtz-interface.lo pugixml.lo parse-pisa.lo gltf-export.lo pae.lo gl-matrix.lo gl-matrix-eigensystem.lo coot-align.lo grid-balls.lo dict-link-info.lo cremer-pople.lo ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/aarch64-linux-gnu/lib -lgemmi_cpp -lmmdb2 -lgsl -lgslcblas -lm -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lcairo -L/usr/lib/aarch64-linux-gnu -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/coot-coord-utils.o .libs/coot-coord-utils-nucleotides.o .libs/coot-rama.o .libs/coot-h-bonds.o .libs/hole.o .libs/read-sm-cif.o .libs/bonded-pairs.o .libs/helix-analysis.o .libs/elastic.o .libs/glyco-torsions.o .libs/coot-least-squares.o .libs/atom-overlaps.o .libs/reduce.o .libs/atom-selection-container.o .libs/contact-info.o .libs/coot-shelx-ins.o .libs/secondary-structure-headers.o .libs/plane-utils.o .libs/c-beta-deviations.o .libs/lidia-core-functions.o .libs/atom-tools.o .libs/bonded-atoms.o .libs/bricks.o .libs/helix-like.o .libs/merge-atom-selections.o .libs/contacts-by-bricks.o .libs/stack-and-pair.o .libs/fast-eigens.o .libs/strand-fragments.o .libs/sfcalc-genmap.o .libs/cablam-markup.o .libs/coot_shiftfield.o .libs/shiftfield.o .libs/fib-sphere.o .libs/polar-atoms.o .libs/3d-texture.o .libs/merge-molecules.o .libs/fragment-container.o .libs/mutate.o .libs/cylinder.o .libs/cylinder-with-rotation-translation.o .libs/oct.o .libs/prideout-octasphere.o .libs/simple-mesh.o .libs/shapes.o .libs/cmtz-interface.o .libs/pugixml.o .libs/parse-pisa.o .libs/gltf-export.o .libs/pae.o .libs/gl-matrix.o .libs/gl-matrix-eigensystem.o .libs/coot-align.o .libs/grid-balls.o .libs/dict-link-info.o .libs/cremer-pople.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs ../lidia-core/.libs/libcoot-lidia-core.so ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -L/usr/lib/aarch64-linux-gnu/lib -lgemmi_cpp -lmmdb2 -lgsl -lgslcblas -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lcairo -L/usr/lib/aarch64-linux-gnu -lpthread -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-coord-utils.so.0 -o .libs/libcoot-coord-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so.0" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so") libtool: link: ( cd ".libs" && rm -f "libcoot-coord-utils.la" && ln -s "../libcoot-coord-utils.la" "libcoot-coord-utils.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -lpthread -Wl,-z,relro -o libcoot-map-utils.la -rpath /usr/lib/aarch64-linux-gnu coot-map-utils.lo peak-search.lo peak-search-from-list.lo trim.lo xmap-stats.lo maps-spherical.lo pepflip-using-difference-map.lo exp-fit.lo blob-line.lo slurp-map.lo find-water-baddies.lo diff-diff-map-peaks.lo mini-texture.lo positron.lo texture-as-floats.lo merge-C-and-N-terminii.lo born.lo libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../protein_db/libcoot-protein-db.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lm -lpthread -lz /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-coord-extras.la -rpath /usr/lib/aarch64-linux-gnu coot-coord-extras.lo coot-coord-lsq.lo coot-tree-extras.lo water-coordination.lo lsq-improve.lo coot-coord-utils-glyco.lo jed-flip.lo cfc.lo libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/coot-coord-extras.o .libs/coot-coord-lsq.o .libs/coot-tree-extras.o .libs/water-coordination.o .libs/lsq-improve.o .libs/coot-coord-utils-glyco.o .libs/jed-flip.o .libs/cfc.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ./.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-coord-extras.so.0 -o .libs/libcoot-coord-extras.so.0.0.0 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/coot-map-utils.o .libs/peak-search.o .libs/peak-search-from-list.o .libs/trim.o .libs/xmap-stats.o .libs/maps-spherical.o .libs/pepflip-using-difference-map.o .libs/exp-fit.o .libs/blob-line.o .libs/slurp-map.o .libs/find-water-baddies.o .libs/diff-diff-map-peaks.o .libs/mini-texture.o .libs/positron.o .libs/texture-as-floats.o .libs/merge-C-and-N-terminii.o .libs/born.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/protein_db/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ./.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../protein_db/.libs/libcoot-protein-db.so ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lpthread -lz -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-map-utils.so.0 -o .libs/libcoot-map-utils.so.0.0.0 ./.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. ./.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so.0" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so") libtool: link: ( cd ".libs" && rm -f "libcoot-coord-extras.la" && ln -s "../libcoot-coord-extras.la" "libcoot-coord-extras.la" ) libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so.0" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so") libtool: link: ( cd ".libs" && rm -f "libcoot-map-utils.la" && ln -s "../libcoot-map-utils.la" "libcoot-map-utils.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-map-heavy.la -rpath /usr/lib/aarch64-linux-gnu coot-map-heavy.lo coot-fffear.lo spherical-harmonics.lo segmap.lo libcoot-map-utils.la libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lm -lpthread /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o coot-mmrrcc mmrrcc.o ./libcoot-map-utils.la ./libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/coot-map-heavy.o .libs/coot-fffear.o .libs/spherical-harmonics.o .libs/segmap.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ./.libs/libcoot-map-utils.so ./.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lpthread -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-map-heavy.so.0 -o .libs/libcoot-map-heavy.so.0.0.0 libtool: link: g++ -DPKGDATADIR=\"/usr/share/coot\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/coot-mmrrcc mmrrcc.o ./.libs/libcoot-map-utils.so ./.libs/libcoot-coord-utils.so ../geometry/.libs/libcoot-geometry.so ../lidia-core/.libs/libcoot-lidia-core.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 ./.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-map-heavy.so.0" && ln -s "libcoot-map-heavy.so.0.0.0" "libcoot-map-heavy.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-map-heavy.so" && ln -s "libcoot-map-heavy.so.0.0.0" "libcoot-map-heavy.so") libtool: link: ( cd ".libs" && rm -f "libcoot-map-heavy.la" && ln -s "../libcoot-map-heavy.la" "libcoot-map-heavy.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/coot-utils' Making all in angles make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/angles' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libcoot_AngleInfo_la-AngleInfo.lo `test -f 'AngleInfo.cc' || echo './'`AngleInfo.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo `test -f 'AngleInfo-angle-torsions-autogen.cc' || echo './'`AngleInfo-angle-torsions-autogen.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo `test -f 'AngleInfo-theta_2-autogen.cc' || echo './'`AngleInfo-theta_2-autogen.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c AngleInfo.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c AngleInfo-theta_2-autogen.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c AngleInfo-angle-torsions-autogen.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-AngleInfo.la -rpath /usr/lib/aarch64-linux-gnu libcoot_AngleInfo_la-AngleInfo.lo libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/libcoot_AngleInfo_la-AngleInfo.o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-AngleInfo.so.0 -o .libs/libcoot-AngleInfo.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.so.0" && ln -s "libcoot-AngleInfo.so.0.0.0" "libcoot-AngleInfo.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.so" && ln -s "libcoot-AngleInfo.so.0.0.0" "libcoot-AngleInfo.so") libtool: link: ( cd ".libs" && rm -f "libcoot-AngleInfo.la" && ln -s "../libcoot-AngleInfo.la" "libcoot-AngleInfo.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/angles' Making all in ccp4mg-utils make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/ccp4mg-utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o geomutil.lo geomutil.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mgtree.lo mgtree.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cartesian.lo cartesian.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o matrix.lo matrix.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o quat.lo quat.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ppmutil.lo ppmutil.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mgtree.cc -fPIC -DPIC -o .libs/mgtree.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cartesian.cc -fPIC -DPIC -o .libs/cartesian.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c quat.cc -fPIC -DPIC -o .libs/quat.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c geomutil.cc -fPIC -DPIC -o .libs/geomutil.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ppmutil.cc -fPIC -DPIC -o .libs/ppmutil.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c matrix.cc -fPIC -DPIC -o .libs/matrix.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libccp4mg-utils.la -rpath /usr/lib/aarch64-linux-gnu geomutil.lo mgtree.lo cartesian.lo matrix.lo quat.lo ppmutil.lo -lpng16 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/geomutil.o .libs/mgtree.o .libs/cartesian.o .libs/matrix.o .libs/quat.o .libs/ppmutil.o -lpng16 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libccp4mg-utils.so.0 -o .libs/libccp4mg-utils.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libpng16.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so.0" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so.0") libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so") libtool: link: ( cd ".libs" && rm -f "libccp4mg-utils.la" && ln -s "../libccp4mg-utils.la" "libccp4mg-utils.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/ccp4mg-utils' Making all in db-main make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/db-main' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o db-main.lo db-main.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o db-strands.lo db-strands.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c db-main.cc -fPIC -DPIC -o .libs/db-main.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c db-strands.cc -fPIC -DPIC -o .libs/db-strands.o In file included from db-main.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from db-strands.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-db-main.la -rpath /usr/lib/aarch64-linux-gnu db-main.lo db-strands.lo ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/db-main.o .libs/db-strands.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so ../coot-utils/.libs/libcoot-coord-utils.so ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-db-main.so.0 -o .libs/libcoot-db-main.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-db-main.so.0" && ln -s "libcoot-db-main.so.0.0.0" "libcoot-db-main.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-db-main.so" && ln -s "libcoot-db-main.so.0.0.0" "libcoot-db-main.so") libtool: link: ( cd ".libs" && rm -f "libcoot-db-main.la" && ln -s "../libcoot-db-main.la" "libcoot-db-main.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/db-main' Making all in analysis make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/analysis' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o bfactan.o bfactan.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o bfkurt.lo bfkurt.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 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g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rna-backbone.cc -fPIC -DPIC -o .libs/rna-backbone.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mogul.cc -fPIC -DPIC -o .libs/mogul.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cablam.cc -fPIC -DPIC -o .libs/cablam.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c typed-distances.cc -fPIC -DPIC -o .libs/typed-distances.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c daca.cc -fPIC -DPIC -o .libs/daca.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c kolmogorov.cc -fPIC -DPIC -o .libs/kolmogorov.o In file included from stats.cc:25: stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ In file included from daca.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from mogul.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from b-factor-histogram.cc:288: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from kolmogorov.cc:25: stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ In file included from mogul.cc:30: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from rna-backbone.cc:31: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-analysis.la -rpath /usr/lib/aarch64-linux-gnu bfkurt.lo mogul.lo kolmogorov.lo stats.lo cablam.lo typed-distances.lo b-factor-histogram.lo daca.lo rna-backbone.lo chi-squared.lo ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -lgsl -lgslcblas -lm -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/bfkurt.o .libs/mogul.o .libs/kolmogorov.o .libs/stats.o .libs/cablam.o .libs/typed-distances.o .libs/b-factor-histogram.o .libs/daca.o .libs/rna-backbone.o .libs/chi-squared.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-analysis.so.0 -o .libs/libcoot-analysis.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 47 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so.0" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so") libtool: link: ( cd ".libs" && rm -f "libcoot-analysis.la" && ln -s "../libcoot-analysis.la" "libcoot-analysis.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o coot-bfactan bfactan.o libcoot-analysis.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/coot-bfactan bfactan.o ./.libs/libcoot-analysis.so ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/analysis' Making all in cootaneer make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/cootaneer' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o buccaneer-lib.lo buccaneer-lib.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o buccaneer-prot.lo buccaneer-prot.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o buccaneer-sequence.lo buccaneer-sequence.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cootaneer-sequence.lo cootaneer-sequence.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c buccaneer-lib.cpp -fPIC -DPIC -o .libs/buccaneer-lib.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cootaneer-sequence.cpp -fPIC -DPIC -o .libs/cootaneer-sequence.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c buccaneer-sequence.cpp -fPIC -DPIC -o .libs/buccaneer-sequence.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c buccaneer-prot.cpp -fPIC -DPIC -o .libs/buccaneer-prot.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcootaneer.la -rpath /usr/lib/aarch64-linux-gnu buccaneer-lib.lo buccaneer-prot.lo buccaneer-sequence.lo cootaneer-sequence.lo -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/buccaneer-lib.o .libs/buccaneer-prot.o .libs/buccaneer-sequence.o .libs/cootaneer-sequence.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcootaneer.so.0 -o .libs/libcootaneer.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcootaneer.so.0" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so.0") libtool: link: (cd ".libs" && rm -f "libcootaneer.so" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so") libtool: link: ( cd ".libs" && rm -f "libcootaneer.la" && ln -s "../libcootaneer.la" "libcootaneer.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/cootaneer' Making all in ideal make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/ideal' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mini-rsr.o mini-rsr.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o simple-restraint.lo simple-restraint.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c simple-restraint.cc -fPIC -DPIC -o .libs/simple-restraint.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c distortion.cc -fPIC -DPIC -o .libs/distortion.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c flanking.cc -fPIC -DPIC -o .libs/flanking.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c make-restraints.cc -fPIC -DPIC -o .libs/make-restraints.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mods.cc -fPIC -DPIC -o .libs/mods.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c extra-restraints.cc -fPIC -DPIC -o .libs/extra-restraints.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c gradients.cc -fPIC -DPIC -o .libs/gradients.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ng.cc -fPIC -DPIC -o .libs/ng.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c pepflip.cc -fPIC -DPIC -o .libs/pepflip.o In file included from mini-rsr.cc:56: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from mini-rsr.cc:58: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/coot-coord-extras.hh:33, from chirals.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o regularize-minimol.lo regularize-minimol.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c regularize-minimol.cc -fPIC -DPIC -o .libs/regularize-minimol.o In file included from simple-restraint.hh:162, from gradients.cc:39: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from simple-restraint.hh:162, from flanking.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from simple-restraint.hh:162, from mods.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from simple-restraint.hh:162, from chi-squareds.cc:41: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:162, from simple-restraint.cc:50: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from simple-restraint.hh:162, from extra-restraints.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:162, from make-restraints.cc:43: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:162, from ng.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from simple-restraint.hh:162, from distortion.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:174, from mini-rsr.cc:60: zo-rama.hh: In member function 'std::pair zo::rama_coeffs::df(const zo::realtype&, const zo::realtype&) const': zo-rama.hh:85:98: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 85 | std::pair df(const realtype &rama_phi, const realtype &rama_psi) const { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from chirals.cc:35: simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from mini-rsr.cc:66: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ simple-restraint.cc: In member function 'std::pair coot::simple_restraint::distortion(mmdb::Atom**, const double&) const': simple-restraint.cc:4110:82: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 4110 | coot::simple_restraint::distortion(mmdb::PAtom *atoms, const double &lj_epsilon) const { | ^~~~~ simple-restraint.hh:2605:27: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2605 | return zo_rama.df(residue_type, phir, psir); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from simple-restraint.hh:162, from regularize-minimol.hh:25, from regularize-minimol.cc:22: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from /usr/include/clipper/core/container_hkl.h:50, from /usr/include/clipper/ccp4/ccp4_mtz_types.h:49, from /usr/include/clipper/ccp4/ccp4_mtz_io.h:49, from mini-rsr.cc:41: /usr/include/clipper/core/hkl_data.h: In member function 'void clipper::HKL_data::compute(const clipper::HKL_data&, const clipper::HKL_data&, const C&) [with S1 = clipper::datatypes::F_sigF; S2 = clipper::datatypes::Phi_fom; C = clipper::datatypes::Compute_fphi_from_fsigf_phifom; T = clipper::datatypes::F_phi]': /usr/include/clipper/core/hkl_data.h:311:96: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 311 | { for (HKL_info::HKL_reference_index ih=parent_hkl_info->first(); !ih.last(); ih.next()) list[ih.index()] = op( ih, src1[ih], src2[ih] ); } | ^~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o lograma.lo lograma.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c lograma.cpp -fPIC -DPIC -o .libs/lograma.o ng.cc: In member function 'void coot::restraints_container_t::analyze_for_bad_restraints(coot::restraint_type_t, double)': ng.cc:2406:97: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2406 | std::pair distortion_pair = rest.distortion(atom, lennard_jones_epsilon); // 2nd arg is not used for bonds | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o process-dfs-in-range.lo process-dfs-in-range.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o extra-restraints-kk.lo extra-restraints-kk.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c process-dfs-in-range.cc -fPIC -DPIC -o .libs/process-dfs-in-range.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c extra-restraints-kk.cc -fPIC -DPIC -o .libs/extra-restraints-kk.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o simple-restraint-kk.lo simple-restraint-kk.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c simple-restraint-kk.cc -fPIC -DPIC -o .libs/simple-restraint-kk.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o torsion-bonds.lo torsion-bonds.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c torsion-bonds.cc -fPIC -DPIC -o .libs/torsion-bonds.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-compare-residues.lo coot-compare-residues.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-compare-residues.cc -fPIC -DPIC -o .libs/coot-compare-residues.o In file included from simple-restraint.hh:162, from extra-restraints-kk.cc:24: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from simple-restraint.hh:162, from simple-restraint-kk.cc:23: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:162, from process-dfs-in-range.cc:37: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:162, from torsion-bonds.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:162, from coot-compare-residues.cc:24: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o link-restraints.lo link-restraints.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c link-restraints.cc -fPIC -DPIC -o .libs/link-restraints.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o parallel-planes.lo parallel-planes.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c parallel-planes.cc -fPIC -DPIC -o .libs/parallel-planes.o In file included from parallel-planes.cc:22: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o pull-restraint.lo pull-restraint.cc simple-restraint.hh:2605:27: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2605 | return zo_rama.df(residue_type, phir, psir); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c pull-restraint.cc -fPIC -DPIC -o .libs/pull-restraint.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o trans-peptide.lo trans-peptide.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c trans-peptide.cc -fPIC -DPIC -o .libs/trans-peptide.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o model-bond-deltas.lo model-bond-deltas.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c model-bond-deltas.cc -fPIC -DPIC -o .libs/model-bond-deltas.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o write-png.lo write-png.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o zo-rama.lo zo-rama.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c write-png.cc -fPIC -DPIC -o .libs/write-png.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c zo-rama.cc -fPIC -DPIC -o .libs/zo-rama.o In file included from simple-restraint.hh:162, from link-restraints.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from zo-rama.hh:42, from write-png.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o crankshaft.lo crankshaft.cc simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c crankshaft.cc -fPIC -DPIC -o .libs/crankshaft.o In file included from parallel-planes.cc:23: simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from zo-rama.hh:42, from zo-rama.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o phi-psi.lo phi-psi.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c phi-psi.cc -fPIC -DPIC -o .libs/phi-psi.o In file included from simple-restraint.hh:162, from pull-restraint.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o neutron.lo neutron.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c neutron.cc -fPIC -DPIC -o .libs/neutron.o simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from zo-rama.hh:42, from crankshaft.hh:37, from crankshaft.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from simple-restraint.hh:162, from trans-peptide.cc:24: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o add-linked-cho.lo add-linked-cho.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o lv.o lv.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c add-linked-cho.cc -fPIC -DPIC -o .libs/add-linked-cho.o simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from simple-restraint.hh:162, from model-bond-deltas.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from model-bond-deltas.cc:29: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ In file included from lv.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from crankshaft.cc:36: simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from crankshaft.cc:37: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ crankshaft.cc: In member function 'std::pair coot::crankshaft::probability_of_spin_orientation(const std::pair&, const std::string&, const std::string&, const zo::rama_table_set&) const': crankshaft.cc:1393:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1393 | const zo::rama_table_set &zorts) const { | ^~~~~ In file included from ../coot-utils/coot-map-utils.hh:33, from add-linked-cho.cc:11: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from simple-restraint.hh:162, from neutron.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from lv.cc:29: simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from add-linked-cho.cc:18: simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ crankshaft.cc: In static member function 'static void coot::crankshaft::optimize_a_triple::df(const gsl_vector*, void*, gsl_vector*)': crankshaft.cc:871:71: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 871 | std::pair grads = zorts.df(pp, rt); | ^ crankshaft.cc: In member function 'std::pair coot::crankshaft::probability_of_spin_orientation(const std::pair&, const std::string&, const std::string&, const zo::rama_table_set&) const': crankshaft.cc:1390:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1390 | coot::crankshaft::probability_of_spin_orientation(const std::pair &ppp, | ^~~~ In constructor 'constexpr coot::simple_restraint::simple_restraint(coot::simple_restraint&&)', inlined from 'constexpr _Tp* std::construct_at(_Tp*, _Args&& ...) [with _Tp = coot::simple_restraint; _Args = {coot::simple_restraint}]' at /usr/include/c++/15/bits/stl_construct.h:110:9, inlined from 'static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = coot::simple_restraint; _Args = {coot::simple_restraint}; _Tp = coot::simple_restraint]' at /usr/include/c++/15/bits/alloc_traits.h:676:21, inlined from 'constexpr void std::vector<_Tp, _Alloc>::_M_realloc_append(_Args&& ...) [with _Args = {coot::simple_restraint}; _Tp = coot::simple_restraint; _Alloc = std::allocator]' at /usr/include/c++/15/bits/vector.tcc:586:26, inlined from 'constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {coot::simple_restraint}; _Tp = coot::simple_restraint; _Alloc = std::allocator]' at /usr/include/c++/15/bits/vector.tcc:123:21, inlined from 'constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = coot::simple_restraint; _Alloc = std::allocator]' at /usr/include/c++/15/bits/stl_vector.h:1434:21, inlined from 'bool coot::restraints_container_t::add(coot::restraint_type_t, int, int, int, int, const std::vector&, float, float, float, int)' at simple-restraint.hh:1432:37, inlined from 'int coot::restraints_container_t::add_link_torsion(std::string, mmdb::Residue*, mmdb::Residue*, short int, short int, const coot::protein_geometry&)' at link-restraints.cc:707:40: simple-restraint.hh:305:10: warning: '.coot::simple_restraint::atom_pull_target_pos' may be used uninitialized [-Wmaybe-uninitialized] 305 | class simple_restraint { | ^~~~~~~~~~~~~~~~ simple-restraint.hh: In member function 'int coot::restraints_container_t::add_link_torsion(std::string, mmdb::Residue*, mmdb::Residue*, short int, short int, const coot::protein_geometry&)': simple-restraint.hh:1434:119: note: '' declared here 1434 | fixed_atom_flags, tar, sig, torsion_restraint_weight, periodicty)); | ^ In function 'std::pair zo::rama_table_set::df(const coot::phi_psi_t&, const std::string&) const': cc1plus: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 In constructor 'constexpr coot::simple_restraint::simple_restraint(coot::simple_restraint&&)', inlined from 'constexpr _Tp* std::construct_at(_Tp*, _Args&& ...) [with _Tp = coot::simple_restraint; _Args = {coot::simple_restraint}]' at /usr/include/c++/15/bits/stl_construct.h:110:9, inlined from 'static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = coot::simple_restraint; _Args = {coot::simple_restraint}; _Tp = coot::simple_restraint]' at /usr/include/c++/15/bits/alloc_traits.h:676:21, inlined from 'constexpr void std::vector<_Tp, _Alloc>::_M_realloc_append(_Args&& ...) [with _Args = {coot::simple_restraint}; _Tp = coot::simple_restraint; _Alloc = std::allocator]' at /usr/include/c++/15/bits/vector.tcc:586:26, inlined from 'constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {coot::simple_restraint}; _Tp = coot::simple_restraint; _Alloc = std::allocator]' at /usr/include/c++/15/bits/vector.tcc:123:21, inlined from 'constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = coot::simple_restraint; _Alloc = std::allocator]' at /usr/include/c++/15/bits/stl_vector.h:1434:21, inlined from 'bool coot::restraints_container_t::add(coot::restraint_type_t, int, int, int, const std::vector&, float, float, bool)' at simple-restraint.hh:1416:37, inlined from 'int coot::restraints_container_t::add_link_angle(std::string, mmdb::PResidue, mmdb::PResidue, short int, short int, const coot::protein_geometry&)' at link-restraints.cc:559:9: simple-restraint.hh:305:10: warning: '.coot::simple_restraint::atom_pull_target_pos' may be used uninitialized [-Wmaybe-uninitialized] 305 | class simple_restraint { | ^~~~~~~~~~~~~~~~ simple-restraint.hh: In member function 'int coot::restraints_container_t::add_link_angle(std::string, mmdb::PResidue, mmdb::PResidue, short int, short int, const coot::protein_geometry&)': simple-restraint.hh:1418:94: note: '' declared here 1418 | is_single_Hydrogen_atom_angle_restraint)); | ^ crankshaft.cc: In member function 'std::vector > coot::crankshaft::spin_search(const coot::residue_spec_t&, const zo::rama_table_set&, int) const': crankshaft.cc:294:81: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 294 | std::pair pr = probability_of_spin_orientation(ppp, rt1, rt2, zorts); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -lpthread -Wl,-z,relro -o libcoot-ideal.la -rpath /usr/lib/aarch64-linux-gnu simple-restraint.lo make-restraints.lo ng.lo chi-squareds.lo mods.lo distortion.lo chirals.lo flanking.lo gradients.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo process-dfs-in-range.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo pull-restraint.lo trans-peptide.lo model-bond-deltas.lo write-png.lo zo-rama.lo crankshaft.lo phi-psi.lo neutron.lo add-linked-cho.lo ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -lmmdb2 -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lm -lpng16 -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/simple-restraint.o .libs/make-restraints.o .libs/ng.o .libs/chi-squareds.o .libs/mods.o .libs/distortion.o .libs/chirals.o .libs/flanking.o .libs/gradients.o .libs/extra-restraints.o .libs/pepflip.o .libs/regularize-minimol.o .libs/lograma.o .libs/process-dfs-in-range.o .libs/extra-restraints-kk.o .libs/simple-restraint-kk.o .libs/torsion-bonds.o .libs/coot-compare-residues.o .libs/link-restraints.o .libs/parallel-planes.o .libs/pull-restraint.o .libs/trans-peptide.o .libs/model-bond-deltas.o .libs/write-png.o .libs/zo-rama.o .libs/crankshaft.o .libs/phi-psi.o .libs/neutron.o .libs/add-linked-cho.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs -lpthread ../coot-utils/.libs/libcoot-map-heavy.so ../coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lpng16 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-ideal.so.0 -o .libs/libcoot-ideal.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libpng16.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so.0" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so") libtool: link: ( cd ".libs" && rm -f "libcoot-ideal.la" && ln -s "../libcoot-ideal.la" "libcoot-ideal.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -lmmdb2 -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -Wl,-z,relro -o mini-rsr-bin mini-rsr.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -lgsl -lgslcblas -lm -lpthread /bin/bash ../libtool --tag=CXX --mode=link g++ -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -lmmdb2 -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -Wl,-z,relro -o coot-ligand-validation-bin lv.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -lpthread libtool: link: g++ -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/coot-ligand-validation-bin lv.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 ./.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lpthread libtool: link: g++ -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng16 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/mini-rsr-bin mini-rsr.o ./.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../compat/.libs/libcoot-compat.so -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lm -lpthread make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/ideal' Making all in ligand make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/ligand' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o find-ligand.o find-ligand.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligand.lo ligand.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligand-extras.lo ligand-extras.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o residue_by_phi_psi.lo residue_by_phi_psi.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 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-DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand-extras.cc -fPIC -DPIC -o .libs/ligand-extras.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c residue_by_phi_psi.cc -fPIC -DPIC -o .libs/residue_by_phi_psi.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c chi-angles-autogen.cc -fPIC -DPIC -o .libs/chi-angles-autogen.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand.cc -fPIC -DPIC -o .libs/ligand.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c helix-placement.cc -fPIC -DPIC -o .libs/helix-placement.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c fast-ss-search.cc -fPIC -DPIC -o .libs/fast-ss-search.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rigid-body.cc -fPIC -DPIC -o .libs/rigid-body.o In file included from dunbrack.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from find-ligand.cc:46: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from rigid-body.hh:25, from rigid-body.cc:23: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ligand-extras.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../mini-mol/mini-mol-utils.hh:22, from fast-ss-search.cc:43: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ligand.hh:32, from ligand.cc:60: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ ligand-extras.cc: In member function 'std::pair coot::ligand::mean_and_variance_where_the_atoms_are(mmdb::Manager*) const': ligand-extras.cc:176:73: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 176 | coot::ligand::mean_and_variance_where_the_atoms_are(mmdb::Manager *mol) const { | ^~~~~ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/coot-coord-extras.hh:33, from chi-angles.cc:23: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from ligand.cc:69: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from ligand.cc:72: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ligand.hh:32, from residue_by_phi_psi.hh:37, from residue_by_phi_psi.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../ideal/simple-restraint.hh:162, from ../ideal/regularize-minimol.hh:25, from wiggly-ligand.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ligand.hh:32, from residue_by_phi_psi.hh:37, from helix-placement.cc:43: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ideal-rna.lo ideal-rna.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ideal-rna.cc -fPIC -DPIC -o .libs/ideal-rna.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o richardson-rotamers.lo richardson-rotamers.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c richardson-rotamers.cc -fPIC -DPIC -o .libs/richardson-rotamers.o In file included from /usr/include/clipper/core/container_hkl.h:50, from /usr/include/clipper/ccp4/ccp4_mtz_types.h:49, from /usr/include/clipper/ccp4/ccp4_mtz_io.h:49, from ligand.cc:55: /usr/include/clipper/core/hkl_data.h: In member function 'void clipper::HKL_data::compute(const clipper::HKL_data&, const clipper::HKL_data&, const C&) [with S1 = clipper::datatypes::F_sigF; S2 = clipper::datatypes::Phi_fom; C = clipper::datatypes::Compute_fphi_from_fsigf_phifom; T = clipper::datatypes::F_phi]': /usr/include/clipper/core/hkl_data.h:311:96: note: parameter passing for argument of type 'clipper::datatypes::F_phi' when C++17 is enabled changed to match C++14 in GCC 10.1 311 | { for (HKL_info::HKL_reference_index ih=parent_hkl_info->first(); !ih.last(); ih.next()) list[ih.index()] = op( ih, src1[ih], src2[ih] ); } | ^~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o richardson-rotamer.lo richardson-rotamer.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c richardson-rotamer.cc -fPIC -DPIC -o .libs/richardson-rotamer.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o rotamer.lo rotamer.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rotamer.cc -fPIC -DPIC -o .libs/rotamer.o In file included from rotamer.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o torsion-general.lo torsion-general.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c torsion-general.cc -fPIC -DPIC -o .libs/torsion-general.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o rotamer-tables.lo rotamer-tables.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rotamer-tables.cc -fPIC -DPIC -o .libs/rotamer-tables.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o primitive-chi-angles.lo primitive-chi-angles.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c primitive-chi-angles.cc -fPIC -DPIC -o .libs/primitive-chi-angles.o In file included from rotamer-tables.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o dipole.lo dipole.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o base-pairing.lo base-pairing.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c dipole.cc -fPIC -DPIC -o .libs/dipole.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c base-pairing.cc -fPIC -DPIC -o .libs/base-pairing.o In file included from dipole.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o backrub-rotamer.lo backrub-rotamer.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o trace.lo trace.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c backrub-rotamer.cc -fPIC -DPIC -o .libs/backrub-rotamer.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c trace.cc -fPIC -DPIC -o .libs/trace.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o trace-2.lo trace-2.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o multi-peptide.lo multi-peptide.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c trace-2.cc -fPIC -DPIC -o .libs/trace-2.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c multi-peptide.cc -fPIC -DPIC -o .libs/multi-peptide.o In file included from backrub-rotamer.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligands-db.lo ligands-db.cc In file included from ../mini-mol/mini-mol.hh:29, from trace.hh:29, from trace-2.cc:23: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligands-db.cc -fPIC -DPIC -o .libs/ligands-db.o In file included from ../mini-mol/mini-mol.hh:29, from multi-peptide.hh:32, from trace.cc:25: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o joining-residues.lo joining-residues.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c joining-residues.cc -fPIC -DPIC -o .libs/joining-residues.o In file included from ligands-db.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligand-score-card.lo ligand-score-card.cc backrub-rotamer.cc: In function 'std::pair > coot::get_clash_score(const minimol::molecule&, atom_selection_container_t, int)': backrub-rotamer.cc:596:76: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 596 | std::pair rotamer_info = a_rotamer.get_pos(); | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o side-chain-densities.lo side-chain-densities.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand-score-card.cc -fPIC -DPIC -o .libs/ligand-score-card.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c side-chain-densities.cc -fPIC -DPIC -o .libs/side-chain-densities.o In file included from ../ideal/simple-restraint.hh:162, from multi-peptide.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ligand-score-card.hh:31, from ligand-score-card.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o tube-finder.lo tube-finder.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c tube-finder.cc -fPIC -DPIC -o .libs/tube-finder.o In file included from ../coot-utils/coot-map-utils.hh:33, from multi-peptide.cc:32: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o smith-waterman.lo smith-waterman.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c smith-waterman.cc -fPIC -DPIC -o .libs/smith-waterman.o In file included from ../mini-mol/mini-mol.hh:29, from ligand.hh:32, from residue_by_phi_psi.hh:37, from joining-residues.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o side-chain.lo side-chain.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c side-chain.cc -fPIC -DPIC -o .libs/side-chain.o trace.cc: In constructor 'coot::trace::trace(const clipper::Xmap&)': trace.cc:53:61: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 53 | std::pair mv = util::mean_and_variance(xmap); | ^ In file included from tube-finder.cc:30: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ In file included from smith-waterman.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from side-chain.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o refine-isolated-chain.lo refine-isolated-chain.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c refine-isolated-chain.cc -fPIC -DPIC -o .libs/refine-isolated-chain.o In file included from side-chain-densities.cc:38: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ tube-finder.cc: In constructor 'coot::tube_finder_t::tube_finder_t(const clipper::Xmap&)': tube-finder.cc:45:69: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 45 | std::pair mv = util::mean_and_variance(blurred_xmap); | ^ g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o find-waters.o find-waters.cc side-chain-densities.cc: In member function 'std::pair coot::density_box_t::mean_and_variance() const': side-chain-densities.cc:1293:42: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1293 | coot::density_box_t::mean_and_variance() const { | ^~~~~ In file included from ../mini-mol/mini-mol.hh:29, from ligand.hh:32, from find-waters.cc:45: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o make-ligands-db.o make-ligands-db.cc multi-peptide.cc: In function 'coot::minimol::fragment coot::multi_build_N_terminal_ALA(mmdb::Residue*, mmdb::Residue*, const std::string&, float, int, const protein_geometry&, const clipper::Xmap&, std::pair, bool)': multi-peptide.cc:701:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 701 | coot::multi_build_N_terminal_ALA(mmdb::Residue *res_p, | ^~~~ In file included from ../ideal/simple-restraint.hh:162, from refine-isolated-chain.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o identify-protein.o identify-protein.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libres-tracer.lo libres-tracer.cc ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c libres-tracer.cc -fPIC -DPIC -o .libs/libres-tracer.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o rama-rsr-extend-fragments.lo rama-rsr-extend-fragments.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rama-rsr-extend-fragments.cc -fPIC -DPIC -o .libs/rama-rsr-extend-fragments.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o new-residue-by-3-phi-psi.lo new-residue-by-3-phi-psi.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c new-residue-by-3-phi-psi.cc -fPIC -DPIC -o .libs/new-residue-by-3-phi-psi.o /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O2 -D_REENTRANT -Wall -Wunused -c -o dSFMT.lo dSFMT.c libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O2 -D_REENTRANT -Wall -Wunused -c dSFMT.c -fPIC -DPIC -o .libs/dSFMT.o In file included from identify-protein.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from /usr/include/clipper/core/cell.h:50, from /usr/include/clipper/core/coords.h:49, from /usr/include/clipper/core/fftmap.h:49, from /usr/include/clipper/core/xmap.h:49, from multi-peptide.hh:30: In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:229:41: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][1]' may be used uninitialized [-Wmaybe-uninitialized] 229 | m(1,0)*v[0]+m(1,1)*v[1]+m(1,2)*v[2], | ~~~~~~^~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][1]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:228:41: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][1]' may be used uninitialized [-Wmaybe-uninitialized] 228 | { return Vec3( m(0,0)*v[0]+m(0,1)*v[1]+m(0,2)*v[2], | ~~~~~~^~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][1]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:228:46: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][2]' may be used uninitialized [-Wmaybe-uninitialized] 228 | { return Vec3( m(0,0)*v[0]+m(0,1)*v[1]+m(0,2)*v[2], | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][2]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator+(const Vec3&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:128, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:171:123: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[1]' may be used uninitialized [-Wmaybe-uninitialized] 171 | template inline Vec3 operator +( const Vec3& v1, const Vec3 &v2 ) { return Vec3( v1[0]+v2[0], v1[1]+v2[1], v1[2]+v2[2]); } | ~~~~~^~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[1]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:229:34: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][0]' may be used uninitialized [-Wmaybe-uninitialized] 229 | m(1,0)*v[0]+m(1,1)*v[1]+m(1,2)*v[2], | ~~~~~~~~~~~^~~~~~~~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][0]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator+(const Vec3&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:128, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:171:110: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[0]' may be used uninitialized [-Wmaybe-uninitialized] 171 | template inline Vec3 operator +( const Vec3& v1, const Vec3 &v2 ) { return Vec3( v1[0]+v2[0], v1[1]+v2[1], v1[2]+v2[2]); } | ~~~~~^~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[0]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:230:34: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][0]' may be used uninitialized [-Wmaybe-uninitialized] 230 | m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } | ~~~~~~~~~~~^~~~~~~~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][0]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:230:46: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][2]' may be used uninitialized [-Wmaybe-uninitialized] 230 | m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][2]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:229:46: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][2]' may be used uninitialized [-Wmaybe-uninitialized] 229 | m(1,0)*v[0]+m(1,1)*v[1]+m(1,2)*v[2], | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[1][2]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:228:34: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][0]' may be used uninitialized [-Wmaybe-uninitialized] 228 | { return Vec3( m(0,0)*v[0]+m(0,1)*v[1]+m(0,2)*v[2], | ~~~~~~~~~~~^~~~~~~~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[0][0]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator*(const Mat33&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:116, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:230:41: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][1]' may be used uninitialized [-Wmaybe-uninitialized] 230 | m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } | ~~~~~~^~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::rot_.clipper::Mat33::mat[2][1]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ In function 'clipper::Vec3 clipper::operator+(const Vec3&, const Vec3&) [with T = double]', inlined from 'clipper::Coord_orth clipper::operator*(const RTop_orth&, const Coord_orth&)' at /usr/include/clipper/core/coords.h:337:128, inlined from 'void coot::trace::move_seeds_close_to_origin(std::vector*) const' at trace.cc:261:59: /usr/include/clipper/core/clipper_types.h:171:136: warning: 'rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[2]' may be used uninitialized [-Wmaybe-uninitialized] 171 | template inline Vec3 operator +( const Vec3& v1, const Vec3 &v2 ) { return Vec3( v1[0]+v2[0], v1[1]+v2[1], v1[2]+v2[2]); } | ~~~~~^~~~ trace.cc: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': trace.cc:223:29: note: 'rtop_best.clipper::RTop_orth::.clipper::RTop::trn_.clipper::Vec3::vec[2]' was declared here 223 | clipper::RTop_orth rtop_best; | ^~~~~~~~~ side-chain-densities.cc: In static member function 'static void coot::side_chain_densities::combine_directory(const std::string&, int, double, double, double, double)': side-chain-densities.cc:2408:64: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2408 | std::pair mi = s.median_and_iqr(); | ^ In file included from ../mini-mol/mini-mol.hh:29, from libres-tracer.cc:38: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from rama-rsr-extend-fragments.cc:30: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from new-residue-by-3-phi-psi.cc:31: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from libres-tracer.cc:47: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ libres-tracer.cc: In lambda function: libres-tracer.cc:1972:77: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1972 | return std::make_pair(sum_forward, sum_backward); | ^ In file included from rama-rsr-extend-fragments.cc:34: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ side-chain-densities.cc: In member function 'std::pair coot::density_box_t::mean_and_variance() const': side-chain-densities.cc:1293:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1293 | coot::density_box_t::mean_and_variance() const { | ^~~~ libres-tracer.cc: In function 'std::vector > make_spin_scored_pairs(const std::vector >&, unsigned int, const clipper::Xmap&, mmdb::Manager*, mmdb::Atom**, int)': libres-tracer.cc:497:67: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 497 | std::pair mv = coot::util::mean_and_variance(xmap); | ^ libres-tracer.cc: In lambda function: libres-tracer.cc:1980:89: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1980 | std::pair score = get_tree_scores(tree); | ^ side-chain-densities.cc: In static member function 'static void coot::side_chain_densities::combine_directory(const std::string&, int, double, double, double, double)': side-chain-densities.cc:2302:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2302 | coot::side_chain_densities::combine_directory(const std::string &rot_dir, int n_steps, | ^~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-ligand.la -rpath /usr/lib/aarch64-linux-gnu ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo trace.lo trace-2.lo multi-peptide.lo ligands-db.lo joining-residues.lo ligand-score-card.lo side-chain-densities.lo tube-finder.lo smith-waterman.lo side-chain.lo refine-isolated-chain.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../lidia-core/libcoot-lidia-core.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -lsqlite3 -lgsl -lgslcblas -lm -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/ligand.o .libs/ligand-extras.o .libs/residue_by_phi_psi.o .libs/wiggly-ligand.o .libs/monomer-utils.o .libs/dunbrack.o .libs/chi-angles-autogen.o .libs/chi-angles.o .libs/helix-placement.o .libs/fast-ss-search.o .libs/rigid-body.o .libs/ideal-rna.o .libs/richardson-rotamers.o .libs/richardson-rotamer.o .libs/rotamer.o .libs/torsion-general.o .libs/rotamer-tables.o .libs/primitive-chi-angles.o .libs/dipole.o .libs/base-pairing.o .libs/backrub-rotamer.o .libs/trace.o .libs/trace-2.o .libs/multi-peptide.o .libs/ligands-db.o .libs/joining-residues.o .libs/ligand-score-card.o .libs/side-chain-densities.o .libs/tube-finder.o .libs/smith-waterman.o .libs/side-chain.o .libs/refine-isolated-chain.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ideal/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/cootaneer/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/db-main/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ccp4mg-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/analysis/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../lidia-core/.libs/libcoot-lidia-core.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../analysis/.libs/libcoot-analysis.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lsqlite3 -lgsl -lgslcblas -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libcoot-ligand.so.0 -o .libs/libcoot-ligand.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 48 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so.0" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so") libtool: link: ( cd ".libs" && rm -f "libcoot-ligand.la" && ln -s "../libcoot-ligand.la" "libcoot-ligand.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o coot-findligand-bin find-ligand.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../db-main/libcoot-db-main.la ../cootaneer/libcootaneer.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -lgsl -lgslcblas -lm /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o coot-findwaters-bin find-waters.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../ccp4mg-utils/libccp4mg-utils.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -lgsl -lgslcblas -lm /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o coot-make-ligands-db make-ligands-db.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-coord-extras.la ../cootaneer/libcootaneer.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o coot-identify-protein-bin identify-protein.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/coot-identify-protein-bin identify-protein.o ./.libs/libcoot-ligand.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -fopenmp libtool: link: g++ -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/coot-findwaters-bin find-waters.o ./.libs/libcoot-ligand.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so ../compat/.libs/libcoot-compat.so -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lm -fopenmp libtool: link: g++ -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/coot-make-ligands-db make-ligands-db.o ./.libs/libcoot-ligand.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../geometry/.libs/libcoot-geometry.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../cootaneer/.libs/libcootaneer.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so ../compat/.libs/libcoot-compat.so -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -fopenmp libtool: link: g++ -fopenmp -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/coot-findligand-bin find-ligand.o ./.libs/libcoot-ligand.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../geometry/.libs/libcoot-geometry.so ../db-main/.libs/libcoot-db-main.so ../cootaneer/.libs/libcootaneer.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so ../compat/.libs/libcoot-compat.so -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lm -fopenmp libres-tracer.cc: In function 'std::vector > make_spin_scored_pairs(const std::vector >&, unsigned int, const clipper::Xmap&, mmdb::Manager*, mmdb::Atom**, int)': libres-tracer.cc:482:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 482 | make_spin_scored_pairs(const std::vector > &atom_pairs_within_distance, | ^~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -fopenmp -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-res-tracer.la -rpath /usr/lib/aarch64-linux-gnu libres-tracer.lo rama-rsr-extend-fragments.lo new-residue-by-3-phi-psi.lo dSFMT.lo libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/libres-tracer.o .libs/rama-rsr-extend-fragments.o .libs/new-residue-by-3-phi-psi.o .libs/dSFMT.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ligand/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ideal/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ./.libs/libcoot-ligand.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libcoot-res-tracer.so.0 -o .libs/libcoot-res-tracer.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libgomp.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-res-tracer.so.0" && ln -s "libcoot-res-tracer.so.0.0.0" "libcoot-res-tracer.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-res-tracer.so" && ln -s "libcoot-res-tracer.so.0.0.0" "libcoot-res-tracer.so") libtool: link: ( cd ".libs" && rm -f "libcoot-res-tracer.la" && ln -s "../libcoot-res-tracer.la" "libcoot-res-tracer.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/ligand' Making all in coords make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/coords' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o Bond_lines.lo Bond_lines.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o Cartesian.lo Cartesian.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cos-sin.lo cos-sin.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o phenix-geo-bonds.lo phenix-geo-bonds.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mmdb-extras.lo mmdb-extras.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 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-DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Bond_lines_ext.cc -fPIC -DPIC -o .libs/Bond_lines_ext.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c phenix-geo.cc -fPIC -DPIC -o .libs/phenix-geo.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Bond_lines.cc -fPIC -DPIC -o .libs/Bond_lines.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rotamer-markup.cc -fPIC -DPIC -o .libs/rotamer-markup.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mmdb-crystal.cc -fPIC -DPIC -o .libs/mmdb-crystal.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c utils.cc -fPIC -DPIC -o .libs/utils.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o loop-path.lo loop-path.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c loop-path.cc -fPIC -DPIC -o .libs/loop-path.o In file included from phenix-geo.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o rama-plot-phi-psi.lo rama-plot-phi-psi.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rama-plot-phi-psi.cc -fPIC -DPIC -o .libs/rama-plot-phi-psi.o In file included from rotamer-markup.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from mmdb.hh:27, from phenix-geo-bonds.cc:25: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o phi-psi-prob.lo phi-psi-prob.cc In file included from ../lidia-core/lbg-molfile.hh:32, from mmdb.hh:27, from mmdb-crystal.cc:48: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c phi-psi-prob.cc -fPIC -DPIC -o .libs/phi-psi-prob.o In file included from ../lidia-core/lbg-molfile.hh:32, from mmdb.hh:27, from mmdb-extras.cc:35: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from mmdb.hh:27, from Bond_lines.cc:36: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from mmdb-crystal.cc:50: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from Bond_lines.cc:41: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ramachandran-validation.lo ramachandran-validation.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DXDATADIR=\"/usr/share\" -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ramachandran-validation.cc -fPIC -DPIC -o .libs/ramachandran-validation.o In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from mmdb.cc:34: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from mmdb.cc:46: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -DXDATADIR='"/usr/share"' -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-coords.la -rpath /usr/lib/aarch64-linux-gnu Bond_lines.lo Cartesian.lo cos-sin.lo phenix-geo-bonds.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo phenix-geo.lo rotamer-markup.lo loop-path.lo rama-plot-phi-psi.lo phi-psi-prob.lo ramachandran-validation.lo ../ligand/libcoot-ligand.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-coord-extras.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../cootaneer/libcootaneer.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/Bond_lines.o .libs/Cartesian.o .libs/cos-sin.o .libs/phenix-geo-bonds.o .libs/mmdb-extras.o .libs/utils.o .libs/mmdb.o .libs/mmdb-crystal.o .libs/Bond_lines_ext.o .libs/coot-close.o .libs/phenix-geo.o .libs/rotamer-markup.o .libs/loop-path.o .libs/rama-plot-phi-psi.o .libs/phi-psi-prob.o .libs/ramachandran-validation.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ligand/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/cootaneer/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../ligand/.libs/libcoot-ligand.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../cootaneer/.libs/libcootaneer.so ../lidia-core/.libs/libcoot-lidia-core.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lpthread -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libcoot-coords.so.0 -o .libs/libcoot-coords.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libgomp.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-coords.so.0" && ln -s "libcoot-coords.so.0.0.0" "libcoot-coords.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coords.so" && ln -s "libcoot-coords.so.0.0.0" "libcoot-coords.so") libtool: link: ( cd ".libs" && rm -f "libcoot-coords.la" && ln -s "../libcoot-coords.la" "libcoot-coords.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/coords' Making all in density-contour make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/density-contour' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o Vectors.lo Vectors.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CIsoSurface.lo CIsoSurface.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o density-contour-triangles.lo density-contour-triangles.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o occlusion.lo occlusion.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o gaussian-surface.lo gaussian-surface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CIsoSurface.cpp -fPIC -DPIC -o .libs/CIsoSurface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c density-contour-triangles.cc -fPIC -DPIC -o .libs/density-contour-triangles.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c occlusion.cc -fPIC -DPIC -o .libs/occlusion.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c gaussian-surface.cc -fPIC -DPIC -o .libs/gaussian-surface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Vectors.cpp -fPIC -DPIC -o .libs/Vectors.o In file included from CIsoSurface.cpp:1248: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from density-contour-triangles.cc:155: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from gaussian-surface.cc:36: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-isosurface.la -rpath /usr/lib/aarch64-linux-gnu Vectors.lo CIsoSurface.lo density-contour-triangles.lo occlusion.lo gaussian-surface.lo ../coords/libcoot-coords.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/Vectors.o .libs/CIsoSurface.o .libs/density-contour-triangles.o .libs/occlusion.o .libs/gaussian-surface.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coords/.libs ../coords/.libs/libcoot-coords.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libcoot-isosurface.so.0 -o .libs/libcoot-isosurface.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libgomp.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so.0" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so") libtool: link: ( cd ".libs" && rm -f "libcoot-isosurface.la" && ln -s "../libcoot-isosurface.la" "libcoot-isosurface.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/density-contour' Making all in skeleton make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/skeleton' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o dm-utils.lo dm-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphical_skel.lo graphical_skel.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o BuildCas.lo BuildCas.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c BuildCas.cc -fPIC -DPIC -o .libs/BuildCas.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphical_skel.cc -fPIC -DPIC -o .libs/graphical_skel.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c dm-utils.cc -fPIC -DPIC -o .libs/dm-utils.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-skeleton.la -rpath /usr/lib/aarch64-linux-gnu dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/angles/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ideal/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coords/.libs ../angles/.libs/libcoot-AngleInfo.so ../ideal/.libs/libcoot-ideal.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libcoot-skeleton.so.0 -o .libs/libcoot-skeleton.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libgomp.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so.0" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so") libtool: link: ( cd ".libs" && rm -f "libcoot-skeleton.la" && ln -s "../libcoot-skeleton.la" "libcoot-skeleton.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/skeleton' Making all in high-res make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/high-res' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o high-res.lo high-res.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-atom-graph.lo coot-atom-graph.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o residue-distortions.lo residue-distortions.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o sequence-assignment.lo sequence-assignment.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-atom-graph.cc -fPIC -DPIC -o .libs/coot-atom-graph.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c sequence-assignment.cc -fPIC -DPIC -o .libs/sequence-assignment.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c high-res.cc -fPIC -DPIC -o .libs/high-res.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c residue-distortions.cc -fPIC -DPIC -o .libs/residue-distortions.o In file included from ../mini-mol/mini-mol.hh:29, from coot-atom-graph.hh:27, from residue-distortions.cc:21: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from coot-atom-graph.hh:27, from coot-atom-graph.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from high-res.cc:24: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from coot-atom-graph.hh:27, from high-res.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from sequence-assignment.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-high-res.la -rpath /usr/lib/aarch64-linux-gnu high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../coot-utils/libcoot-coord-utils.la ../coords/libcoot-coords.la ../ligand/libcoot-ligand.la ../coot-utils/libcoot-map-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/high-res.o .libs/coot-atom-graph.o .libs/residue-distortions.o .libs/sequence-assignment.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coords/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ligand/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../coot-utils/.libs/libcoot-coord-utils.so ../coords/.libs/libcoot-coords.so ../ligand/.libs/libcoot-ligand.so ../coot-utils/.libs/libcoot-map-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libcoot-high-res.so.0 -o .libs/libcoot-high-res.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libgomp.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-high-res.so.0" && ln -s "libcoot-high-res.so.0.0.0" "libcoot-high-res.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-high-res.so" && ln -s "libcoot-high-res.so.0.0.0" "libcoot-high-res.so") libtool: link: ( cd ".libs" && rm -f "libcoot-high-res.la" && ln -s "../libcoot-high-res.la" "libcoot-high-res.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/high-res' Making all in build make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/build' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CalphaBuild.lo CalphaBuild.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CalphaBuild.cc -fPIC -DPIC -o .libs/CalphaBuild.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-cabuild.la -rpath /usr/lib/aarch64-linux-gnu CalphaBuild.lo ../angles/libcoot-AngleInfo.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/CalphaBuild.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/angles/.libs ../angles/.libs/libcoot-AngleInfo.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-cabuild.so.0 -o .libs/libcoot-cabuild.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.so.0" && ln -s "libcoot-cabuild.so.0.0.0" "libcoot-cabuild.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.so" && ln -s "libcoot-cabuild.so.0.0.0" "libcoot-cabuild.so") libtool: link: ( cd ".libs" && rm -f "libcoot-cabuild.la" && ln -s "../libcoot-cabuild.la" "libcoot-cabuild.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/build' Making all in MoleculesToTriangles make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles' Making all in CXXSurface make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles/CXXSurface' /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXCircle.lo CXXCircle.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXCircleNode.lo CXXCircleNode.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXCoord.lo CXXCoord.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXFortranFile.lo CXXFortranFile.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ 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-ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXCoord.cpp -fPIC -DPIC -o .libs/CXXCoord.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXSphereNode.cpp -fPIC -DPIC -o .libs/CXXSphereNode.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXFortranFile.cpp -fPIC -DPIC -o .libs/CXXFortranFile.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXSurface.cpp -fPIC -DPIC -o .libs/CXXSurface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXTorusElement.cpp -fPIC -DPIC -o .libs/CXXTorusElement.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXSphereTriangle.cpp -fPIC -DPIC -o .libs/CXXSphereTriangle.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXSphereTriangleEdge.cpp -fPIC -DPIC -o .libs/CXXSphereTriangleEdge.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXSurfaceVertex.cpp -fPIC -DPIC -o .libs/CXXSurfaceVertex.o CXXFortranFile.cpp: In member function 'size_t CXXFortranFile::getFortranData(char*, size_t, size_t, int)': CXXFortranFile.cpp:192:20: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] 192 | for (int i=0; i&, mmdb::Manager*, int)': CXXSurface.cpp:497:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 497 | for (int i=0; i< nVerts; i++){ | ~^~~~~~~~ CXXSurface.cpp: In member function 'size_t CXXSurface::updateWithVectorData(size_t, std::string, size_t, double*)': CXXSurface.cpp:585:30: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 585 | if (int(vertices.size()) < start + count){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ CXXSurface.cpp: In member function 'size_t CXXSurface::updateWithPointerData(size_t, std::string, size_t, void**)': CXXSurface.cpp:599:30: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 599 | if (int(vertices.size()) < start + count){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ CXXCircleNode.cpp: In static member function 'static int CXXCircleNode::probeContacts(std::vector&, double, std::map >&)': CXXCircleNode.cpp:176:59: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<__gnu_cxx::__normal_iterator > >::size_type' {aka 'long unsigned int'} [-Wsign-compare] 176 | for (int iCentralProbe = 0; iCentralProbe < centralBin.size(); iCentralProbe++){ | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ CXXSurface.cpp: In member function 'size_t CXXSurface::setCoord(const std::string&, size_t, const CXXCoord&)': CXXSurface.cpp:817:30: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 817 | if (int(vertices.size()) <= iVertex){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ CXXSphereElement.cpp: In copy constructor 'CXXSphereElement::CXXSphereElement(const CXXSphereElement&)': CXXSphereElement.cpp:279:24: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 279 | for (int i=0; i::size_type' {aka 'long unsigned int'} [-Wsign-compare] 1013 | for (int i=0; i::size_type' {aka 'long unsigned int'} [-Wsign-compare] 1015 | for (int j=0; j::size_type' {aka 'long unsigned int'} [-Wsign-compare] 1031 | for (int i=0; i&)': CXXSphereElement.cpp:673:24: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 673 | for (int i=0; i 2 | dimension < 0) { | ~~~~~~~~~~^~~ CXXSpace.cpp:531:57: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 531 | if (j == (dim[1]-1)) | ^~ CXXSpace.cpp:533:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 533 | break; | ^~~~~ CXXSpace.cpp:538:57: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 538 | if (j == (dim[1]-1)) | ^~ CXXSpace.cpp:541:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 541 | break; | ^~~~~ CXXSpace.cpp:578:57: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 578 | if (i == (dim[0]-1)) | ^~ CXXSpace.cpp:581:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 581 | break; | ^~~~~ CXXSpace.cpp:586:57: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 586 | if (i == (dim[0]-1)) | ^~ CXXSpace.cpp:590:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 590 | break; | ^~~~~ CXXSpace.cpp:620:57: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 620 | if (i == (dim[0]-1)) | ^~ CXXSpace.cpp:623:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 623 | break; | ^~~~~ CXXSpace.cpp:628:57: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 628 | if (i == (dim[0]-1)) | ^~ CXXSpace.cpp:631:65: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 631 | break; | ^~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXException.lo CXXException.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXUtils.lo CXXUtils.cpp CXXFFTSolventMap.cpp: In constructor 'SolventMap::SolventMap(fftw_real, fftw_real, fftw_real, fftw_real, fftw_real, fftw_real, fftw_real, fftw_real)': CXXFFTSolventMap.cpp:32:25: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 32 | if (probeRadius < 0 | gridSpacing < 0) { | ~~~~~~~~~~~~^~~ CXXFFTSolventMap.cpp: In member function 'int SolventMap::convoluteSolidProbe(fftw_real, int, int, float)': CXXFFTSolventMap.cpp:361:22: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 361 | if (FFTProbe == 0 | FFTGrid == 0 | FourierScratch == 0 | Probe == 0) { | ~~~~~~~~~^~~~ CXXFFTSolventMap.cpp:361:59: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 361 | if (FFTProbe == 0 | FFTGrid == 0 | FourierScratch == 0 | Probe == 0) { | ~~~~~~~~~~~~~~~^~~~ CXXFFTSolventMap.cpp:361:72: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 361 | if (FFTProbe == 0 | FFTGrid == 0 | FourierScratch == 0 | Probe == 0) { | ~~~~~~^~~~ CXXFFTSolventMap.cpp: In member function 'int SolventMap::dumpXSlice(int, int, int)': CXXFFTSolventMap.cpp:743:21: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 743 | if (SliceNr > dim[0] | SliceNr < 1) { | ~~~~~~~~^~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXException.cpp -fPIC -DPIC -o .libs/CXXException.o CXXQADSurface.cpp: In member function 'int CXXQADSurface::contourMap(double)': CXXQADSurface.cpp:599:75: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 599 | iCompare >=compareStart && !iEquivalent; | ~~~~~~~~~^~~~~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXUtils.cpp -fPIC -DPIC -o .libs/CXXUtils.o CXXCreator.cpp: In member function 'int CXXCreator::distributeAtomCharge(CXXCoord, CXXCoord, CXXCoord, CXXCoord, int)': CXXCreator.cpp:261:28: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 261 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ CXXCreator.cpp:261:78: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 261 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ CXXCreator.cpp:289:14: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 289 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~~ CXXCreator.cpp:289:38: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 289 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~ CXXCreator.cpp:311:14: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 311 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ CXXCreator.cpp:311:68: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 311 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ CXXCreator.cpp: In member function 'double CXXCreator::getGridVolumeOfAtom(CXXCoord, CXXCoord, CXXCoord, CXXCoord, int)': CXXCreator.cpp:389:28: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 389 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ CXXCreator.cpp:389:78: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 389 | if (distanceVector.x() < 0 | distanceVector.y() < 0 | distanceVector.z() < 0) { | ~~~~~~~~~~~~~~~~~~~^~~ CXXCreator.cpp:414:14: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 414 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~~ CXXCreator.cpp:414:38: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 414 | if (iMin <= 0 | jMin <= 0 | kMin < 0) { | ~~~~~^~~ CXXCreator.cpp:433:14: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 433 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ CXXCreator.cpp:433:68: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 433 | if (iMax >= space->getDimI() | jMin >= space->getDimJ() | kMin >= space->getDimK()) { | ~~~~~^~~~~~~~~~~~~~~~~~~ CXXCreator.cpp: In member function 'int CXXCreator::evolve(int, double)': CXXCreator.cpp:789:34: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 789 | for (size_t i = 0; i < space->getDimI(); i++) { | ~~^~~~~~~~~~~~~~~~~~ CXXCreator.cpp:793:35: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 793 | for (size_t j=0; jgetDimJ(); j++) largestChangeOfRow[j]=-1e30; | ~^~~~~~~~~~~~~~~~~ CXXCreator.cpp:796:35: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 796 | for (size_t j=0; jgetDimJ(); j++) largestPotentialOfRow[j]=-1e30; | ~^~~~~~~~~~~~~~~~~ CXXCreator.cpp:804:38: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 804 | for (size_t j = 0; j < passableSpace->getDimJ(); j++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ CXXCreator.cpp:809:42: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 809 | for (size_t k = 0; k < passableSpace->getDimK(); k++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ CXXCreator.cpp:812:41: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 812 | if (((i+j+k)%2) == (n%2)) { | ~~~~~~~~~~~~^~~~~~~~ CXXCreator.cpp:851:35: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 851 | for (size_t j=0; jgetDimJ(); j++) largestChange = max(largestChange,largestChangeOfRow[j]); | ~^~~~~~~~~~~~~~~~~ CXXCreator.cpp:852:35: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 852 | for (size_t j=0; jgetDimJ(); j++) largestPotential = max(largestPotential,largestPotentialOfRow[j]); | ~^~~~~~~~~~~~~~~~~ CXXQADSurface.cpp: In member function 'int CXXQADSurface::sqrtDistanceSq()': CXXQADSurface.cpp:878:37: warning: comparison of floating-point type 'double' with enumeration type 'CXXQADSurface::Flag' is deprecated [-Wdeprecated-enum-float-conversion] 878 | if (theDoubleMap[ix]!= Solvent){ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXBall.lo CXXBall.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXBall.cpp -fPIC -DPIC -o .libs/CXXBall.o CXXBall.cpp:87:2: warning: #warning Compiling for OMP [-Wcpp] 87 | #warning Compiling for OMP | ^~~~~~~ CXXBall.cpp:157:2: warning: #warning Compiling for OMP [-Wcpp] 157 | #warning Compiling for OMP | ^~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o CXXSurfaceMaker.lo CXXSurfaceMaker.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -Wdate-time -D_FORTIFY_SOURCE=2 -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXSurfaceMaker.cpp -fPIC -DPIC -o .libs/CXXSurfaceMaker.o CXXSurfaceMaker.cpp:431:2: warning: #warning Compiling for OMP [-Wcpp] 431 | #warning Compiling for OMP | ^~~~~~~ CXXSurfaceMaker.cpp:569:2: warning: #warning Compiling for OMP [-Wcpp] 569 | #warning Compiling for OMP | ^~~~~~~ CXXBall.cpp: In static member function 'static int CXXBall::triangulateBalls(std::vector&, std::vector&, double, CXXSurfaceMaker*, int)': CXXBall.cpp:88:24: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 88 | for (int i=0; i< nBalls; i++){ | ~^~~~~~~~ CXXBall.cpp:93:26: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 93 | if (!(i%100) || i==nBalls-1) { | ~^~~~~~~~~~ CXXBall.cpp:129:20: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 129 | for (int i=0; i::size_type' {aka 'long unsigned int'} [-Wsign-compare] 160 | for (int i=0; i&, std::vector&, std::map >&)': CXXBall.cpp:295:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 295 | for (int iBall=0; iBall< balls.size(); iBall++){ | ~~~~~^~~~~~~~~~~~~~ CXXSurfaceMaker.cpp: In member function 'int CXXSurfaceMaker::calculateVDWFromAtoms(mmdb::Manager*, int, int, double, double, double, bool)': CXXSurfaceMaker.cpp:193:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 193 | for (int i = 0; i < vdwBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:196:13: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 196 | delete static_cast(vdwBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:198:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 198 | for (int i = 0; i < contextBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:204:17: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 204 | delete static_cast(contextBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp: In member function 'int CXXSurfaceMaker::calculateAccessibleFromAtoms(mmdb::Manager*, int, int, double, double, double, bool)': CXXSurfaceMaker.cpp:255:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 255 | for (int i = 0; i < vdwBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:258:13: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 258 | delete static_cast(vdwBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:260:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 260 | for (int i = 0; i < contextBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:266:17: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 266 | delete static_cast(contextBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp: In member function 'int CXXSurfaceMaker::calculateFromAtoms(mmdb::Manager*, int, int, double, double, double, bool)': CXXSurfaceMaker.cpp:509:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 509 | for (int i = 0; i < vdwBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:512:13: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 512 | delete static_cast(vdwBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:514:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 514 | for (int i = 0; i < contextBallPntrs.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:517:13: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 517 | delete static_cast(contextBallPntrs[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:520:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 520 | for (int i = 0; i < reentrantProbes.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp:522:9: warning: deleting object of polymorphic class type 'CXXReentrantProbeBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 522 | delete static_cast(reentrantProbes[i]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ CXXSurfaceMaker.cpp: In member function 'SurfaceParameters CXXSurfaceMaker::measuredProperties()': CXXSurfaceMaker.cpp:571:47: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 571 | for (int iChildSurface = 0; iChildSurface < childSurfaces.size(); iChildSurface++) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=link g++ -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libMoleculesToTrianglesCXXSurface.la -rpath /usr/lib/aarch64-linux-gnu CXXCircle.lo CXXCircleNode.lo CXXCoord.lo CXXFortranFile.lo CXXNewHood.lo CXXSphereElement.lo CXXSphereNode.lo CXXSphereTriangle.lo CXXSphereTriangleEdge.lo CXXSurface.lo CXXSurfaceVertex.lo CXXTorusElement.lo CXXTorusNode.lo CXXTriangle.lo CXXQADSurface.lo CXXQADSurfaceStaticData.lo CXXCreator.lo CXXSpace.lo CXXFFTSolventMap.lo CXXChargeTable.lo CXXException.lo CXXUtils.lo CXXBall.lo CXXSurfaceMaker.lo -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lsrfftw -lsfftw -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/CXXCircle.o .libs/CXXCircleNode.o .libs/CXXCoord.o .libs/CXXFortranFile.o .libs/CXXNewHood.o .libs/CXXSphereElement.o .libs/CXXSphereNode.o .libs/CXXSphereTriangle.o .libs/CXXSphereTriangleEdge.o .libs/CXXSurface.o .libs/CXXSurfaceVertex.o .libs/CXXTorusElement.o .libs/CXXTorusNode.o .libs/CXXTriangle.o .libs/CXXQADSurface.o .libs/CXXQADSurfaceStaticData.o .libs/CXXCreator.o .libs/CXXSpace.o .libs/CXXFFTSolventMap.o .libs/CXXChargeTable.o .libs/CXXException.o .libs/CXXUtils.o .libs/CXXBall.o .libs/CXXSurfaceMaker.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lsrfftw -lsfftw -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libMoleculesToTrianglesCXXSurface.so.0 -o .libs/libMoleculesToTrianglesCXXSurface.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib/libsrfftw.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib/libsfftw.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libgomp.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXSurface.so.0" && ln -s "libMoleculesToTrianglesCXXSurface.so.0.0.0" "libMoleculesToTrianglesCXXSurface.so.0") libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXSurface.so" && ln -s "libMoleculesToTrianglesCXXSurface.so.0.0.0" "libMoleculesToTrianglesCXXSurface.so") libtool: link: ( cd ".libs" && rm -f "libMoleculesToTrianglesCXXSurface.la" && ln -s "../libMoleculesToTrianglesCXXSurface.la" "libMoleculesToTrianglesCXXSurface.la" ) make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles/CXXSurface' Making all in CXXClasses make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles/CXXClasses' /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.lo `test -f 'AtomPropertyRampColorRule.cpp' || echo './'`AtomPropertyRampColorRule.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.lo `test -f 'DirectedPositionedEntity.cpp' || echo './'`DirectedPositionedEntity.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-Representation.lo `test -f 'Representation.cpp' || echo './'`Representation.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.lo `test -f 'BallsPrimitive.cpp' || echo './'`BallsPrimitive.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.lo `test -f 'DiscreteSegment.cpp' || echo './'`DiscreteSegment.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.lo `test -f 'RepresentationInstance.cpp' || echo './'`RepresentationInstance.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.lo `test -f 'BondsPrimitive.cpp' || echo './'`BondsPrimitive.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.lo `test -f 'DisplayPrimitive.cpp' || echo './'`DisplayPrimitive.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.lo `test -f 'RotatedTranslatedScaledEntity.cpp' || echo './'`RotatedTranslatedScaledEntity.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.lo `test -f 'BoxSectionPrimitive.cpp' || echo './'`BoxSectionPrimitive.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-Light.lo `test -f 'Light.cpp' || echo './'`Light.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-CXXMatrix.lo `test -f 'CXXMatrix.cpp' || echo './'`CXXMatrix.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Representation.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Representation.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c DisplayPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c AtomPropertyRampColorRule.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c DiscreteSegment.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Light.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Light.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c DirectedPositionedEntity.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c BondsPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c BallsPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CXXMatrix.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c RotatedTranslatedScaledEntity.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c RepresentationInstance.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c BoxSectionPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.o In file included from NRStuff.h:31, from DiscreteSegment.h:26, from DiscreteSegment.cpp:26: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd In file included from RotatedTranslatedScaledEntity.h:28, from RotatedTranslatedScaledEntity.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from DisplayPrimitive.h:32, from Representation.h:36, from Representation.cpp:33: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from DisplayPrimitive.h:32, from DisplayPrimitive.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from DisplayPrimitive.h:32, from BondsPrimitive.h:28, from BondsPrimitive.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from PositionedEntity.h:28, from DirectedPositionedEntity.h:28, from DirectedPositionedEntity.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from ColorRule.h:29, from AtomPropertyRampColorRule.h:27, from AtomPropertyRampColorRule.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from DisplayPrimitive.h:32, from VertexColorNormalPrimitive.h:27, from BallsPrimitive.h:33, from BallsPrimitive.cpp:28: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from CXXMatrix.h:28, from CXXMatrix.cpp:24: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from RotatedTranslatedScaledEntity.h:28, from Light.h:29, from Light.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from DisplayPrimitive.h:32, from VertexColorNormalPrimitive.h:27, from CylindersPrimitive.h:29, from BoxSectionPrimitive.h:31, from BoxSectionPrimitive.cpp:32: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from RotatedTranslatedScaledEntity.h:28, from RepresentationInstance.h:32, from RepresentationInstance.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.lo `test -f 'MolecularRepresentation.cpp' || echo './'`MolecularRepresentation.cpp DiscreteSegment.cpp: In member function 'void DiscreteSegment::evaluateNormals()': DiscreteSegment.cpp:44:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 44 | for (int i=1; i<(calphas.size()-1); i++){ | ~^~~~~~~~~~~~~~~~~~~ DiscreteSegment.cpp: In member function 'void DiscreteSegment::smoothBetas()': DiscreteSegment.cpp:83:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 83 | for (int iCalpha=0; iCalpha::size_type' {aka 'long unsigned int'} [-Wsign-compare] 88 | && iCalpha+nInStrand < calphas.size()){ | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ DiscreteSegment.cpp:98:35: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 98 | if (iCalpha+nInStrand < calphas.size()){ | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ DiscreteSegment.cpp: In member function 'void DiscreteSegment::evaluateSplines()': DiscreteSegment.cpp:135:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 135 | for (int i=0; inVertices(); iVertex++){ | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BallsPrimitive.cpp:110:35: warning: comparison of integer expressions of different signedness: 'int' and 'long unsigned int' [-Wsign-compare] 110 | for (int iFace = 0; iFace < ((Polyhedron *)poly)->nFaces(); iFace++){ | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BoxSectionPrimitive.cpp: In member function 'virtual void BoxSectionPrimitive::generateArrays()': BoxSectionPrimitive.cpp:72:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 72 | for (int i=0; i< points.size(); i++){ | ~^~~~~~~~~~~~~~~ BoxSectionPrimitive.cpp:105:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 105 | for (int i=0; i< points.size()-1; i++){ | ~^~~~~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-SolidColorRule.lo `test -f 'SolidColorRule.cpp' || echo './'`SolidColorRule.cpp In file included from MyMolecule.h:28, from MyMolecule.cpp:27: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c SolidColorRule.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SolidColorRule.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-ColorRule.lo `test -f 'ColorRule.cpp' || echo './'`ColorRule.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-NRStuff.lo `test -f 'NRStuff.cpp' || echo './'`NRStuff.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ColorRule.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-ColorRule.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.lo `test -f 'SpherePrimitive.cpp' || echo './'`SpherePrimitive.cpp In file included from ColorRule.h:29, from SolidColorRule.h:27, from SolidColorRule.cpp:26: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c NRStuff.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-NRStuff.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-ColorScheme.lo `test -f 'ColorScheme.cpp' || echo './'`ColorScheme.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-Polyhedron.lo `test -f 'Polyhedron.cpp' || echo './'`Polyhedron.cpp In file included from ColorRule.h:29, from ColorRule.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c SpherePrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.o In file included from NRStuff.h:31, from NRStuff.cpp:29: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ColorScheme.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-ColorScheme.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Polyhedron.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Polyhedron.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.lo `test -f 'SticksPrimitive.cpp' || echo './'`SticksPrimitive.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-CompoundSelection.lo `test -f 'CompoundSelection.cpp' || echo './'`CompoundSelection.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-PositionedEntity.lo `test -f 'PositionedEntity.cpp' || echo './'`PositionedEntity.cpp In file included from DisplayPrimitive.h:32, from SpherePrimitive.h:29, from SpherePrimitive.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c SticksPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.o In file included from ColorRule.h:29, from ColorScheme.h:32, from ColorScheme.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd ColorScheme.h:95:23: warning: 'virtual FCXXCoord ColorScheme::colorForAtom(const mmdb::Atom*, std::map, int>&)' was hidden [-Woverloaded-virtual=] 95 | virtual FCXXCoord colorForAtom(const mmdb::Atom* atom, std::map, int> &handles){ | ^~~~~~~~~~~~ SecondaryColorScheme.h:52:23: note: by 'virtual FCXXCoord SecondaryColorScheme::colorForAtom(mmdb::Atom*)' 52 | virtual FCXXCoord colorForAtom(mmdb::Atom* atom){ | ^~~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CompoundSelection.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-CompoundSelection.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c PositionedEntity.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-PositionedEntity.o In file included from DisplayPrimitive.h:32, from VertexColorNormalPrimitive.h:27, from SticksPrimitive.h:31, from SticksPrimitive.cpp:28: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-SurfacePrimitive.lo `test -f 'SurfacePrimitive.cpp' || echo './'`SurfacePrimitive.cpp In file included from MyMolecule.h:28, from CompoundSelection.h:35, from CompoundSelection.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from PositionedEntity.h:28, from PositionedEntity.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c SurfacePrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-SurfacePrimitive.o In file included from DisplayPrimitive.h:32, from VertexColorNormalPrimitive.h:27, from SurfacePrimitive.h:28, from SurfacePrimitive.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-CylinderPoint.lo `test -f 'CylinderPoint.cpp' || echo './'`CylinderPoint.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-Renderer.lo `test -f 'Renderer.cpp' || echo './'`Renderer.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-VertexColorNormalPrimitive.lo `test -f 'VertexColorNormalPrimitive.cpp' || echo './'`VertexColorNormalPrimitive.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CylinderPoint.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-CylinderPoint.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Renderer.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Renderer.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-CylindersPrimitive.lo `test -f 'CylindersPrimitive.cpp' || echo './'`CylindersPrimitive.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c VertexColorNormalPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-VertexColorNormalPrimitive.o In file included from CylinderPoint.h:29, from CylinderPoint.cpp:28: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c CylindersPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-CylindersPrimitive.o In file included from Renderer.h:28, from Renderer.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from DisplayPrimitive.h:32, from VertexColorNormalPrimitive.h:27, from VertexColorNormalPrimitive.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from DisplayPrimitive.h:32, from VertexColorNormalPrimitive.h:27, from CylindersPrimitive.h:29, from CylindersPrimitive.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd CompoundSelection.cpp: In destructor 'CompoundSelection::~CompoundSelection()': CompoundSelection.cpp:36:13: warning: deleting object of polymorphic class type 'CompoundSelection' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 36 | delete p; | ^~~~~~~~ CompoundSelection.cpp:39:13: warning: deleting object of polymorphic class type 'MMDBStringPrimitive' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 39 | delete p; | ^~~~~~~~ CompoundSelection.cpp:42:13: warning: deleting object of polymorphic class type 'MMDBSecondaryTypePrimitive' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 42 | delete p; | ^~~~~~~~ CompoundSelection.cpp:45:13: warning: deleting object of polymorphic class type 'MMDBSubsetTypePrimitive' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 45 | delete p; | ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-oglPolyhedron.lo `test -f 'oglPolyhedron.cpp' || echo './'`oglPolyhedron.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c oglPolyhedron.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-oglPolyhedron.o In file included from Polyhedron.h:32, from oglPolyhedron.h:29, from oglPolyhedron.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.lo `test -f 'MolecularRepresentationInstance.cpp' || echo './'`MolecularRepresentationInstance.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c MolecularRepresentationInstance.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-Quaternion.lo `test -f 'Quaternion.cpp' || echo './'`Quaternion.cpp CylindersPrimitive.cpp: In member function 'virtual void CylindersPrimitive::generateArrays()': CylindersPrimitive.cpp:85:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 85 | for (int i=0; i< points.size(); i++){ | ~^~~~~~~~~~~~~~~ CylindersPrimitive.cpp:113:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 113 | for (int i=0; i< points.size()-1; i++){ | ~^~~~~~~~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Quaternion.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Quaternion.o In file included from MyMolecule.h:28, from MolecularRepresentation.h:32, from MolecularRepresentationInstance.h:30, from MolecularRepresentationInstance.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-Vector2.lo `test -f 'Vector2.cpp' || echo './'`Vector2.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Vector2.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Vector2.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-Vector3.lo `test -f 'Vector3.cpp' || echo './'`Vector3.cpp /bin/bash ../../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O2 -D_REENTRANT -Wall -Wunused -c -o libMoleculesToTrianglesCXXClasses_la-lfit.lo `test -f 'lfit.c' || echo './'`lfit.c libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c Vector3.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-Vector3.o libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O2 -D_REENTRANT -Wall -Wunused -c lfit.c -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-lfit.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-DishyBase.lo `test -f 'DishyBase.cpp' || echo './'`DishyBase.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.lo `test -f 'FlatFanPrimitive.cpp' || echo './'`FlatFanPrimitive.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c DishyBase.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-DishyBase.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o libMoleculesToTrianglesCXXClasses_la-tubes.lo `test -f 'tubes.cc' || echo './'`tubes.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c FlatFanPrimitive.cpp -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.o In file included from DishyBase.h:31, from DishyBase.cpp:23: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I../.. -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c tubes.cc -fPIC -DPIC -o .libs/libMoleculesToTrianglesCXXClasses_la-tubes.o In file included from DisplayPrimitive.h:32, from VertexColorNormalPrimitive.h:27, from FlatFanPrimitive.h:29, from FlatFanPrimitive.cpp:25: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from ../../MoleculesToTriangles/CXXClasses/NRStuff.h:31, from tubes.cc:8: ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd MyMolecule.cpp: In member function 'int MyMolecule::loadCoords(char*, int, int)': MyMolecule.cpp:92:25: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output may be truncated copying 8 bytes from a string of length 225 [-Wstringop-truncation] 92 | strncpy (field, tokenBuffer+30, 8); | ^ MyMolecule.cpp:94:25: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output may be truncated copying 8 bytes from a string of length 217 [-Wstringop-truncation] 94 | strncpy (field, tokenBuffer+38, 8); | ^ MyMolecule.cpp:96:25: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output may be truncated copying 8 bytes from a string of length 209 [-Wstringop-truncation] 96 | strncpy (field, tokenBuffer+46, 8); | ^ MyMolecule.cpp:99:25: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output may be truncated copying 6 bytes from a string of length 201 [-Wstringop-truncation] 99 | strncpy (field, tokenBuffer+54, 6); | ^ MyMolecule.cpp:101:25: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' output may be truncated copying 6 bytes from a string of length 195 [-Wstringop-truncation] 101 | strncpy (field, tokenBuffer+60, 6); | ^ /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -L/usr/lib/aarch64-linux-gnu -Wl,-z,relro -o libMoleculesToTrianglesCXXClasses.la -rpath /usr/lib/aarch64-linux-gnu libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.lo libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.lo libMoleculesToTrianglesCXXClasses_la-Representation.lo libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.lo libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.lo libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.lo libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.lo libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.lo libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.lo libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.lo libMoleculesToTrianglesCXXClasses_la-Light.lo libMoleculesToTrianglesCXXClasses_la-CXXMatrix.lo libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.lo libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.lo libMoleculesToTrianglesCXXClasses_la-MyMolecule.lo libMoleculesToTrianglesCXXClasses_la-SolidColorRule.lo libMoleculesToTrianglesCXXClasses_la-ColorRule.lo libMoleculesToTrianglesCXXClasses_la-NRStuff.lo libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.lo libMoleculesToTrianglesCXXClasses_la-ColorScheme.lo libMoleculesToTrianglesCXXClasses_la-Polyhedron.lo libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.lo libMoleculesToTrianglesCXXClasses_la-CompoundSelection.lo libMoleculesToTrianglesCXXClasses_la-PositionedEntity.lo libMoleculesToTrianglesCXXClasses_la-SurfacePrimitive.lo libMoleculesToTrianglesCXXClasses_la-CylinderPoint.lo libMoleculesToTrianglesCXXClasses_la-Renderer.lo libMoleculesToTrianglesCXXClasses_la-VertexColorNormalPrimitive.lo libMoleculesToTrianglesCXXClasses_la-CylindersPrimitive.lo libMoleculesToTrianglesCXXClasses_la-oglPolyhedron.lo libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.lo libMoleculesToTrianglesCXXClasses_la-Quaternion.lo libMoleculesToTrianglesCXXClasses_la-Vector2.lo libMoleculesToTrianglesCXXClasses_la-Vector3.lo libMoleculesToTrianglesCXXClasses_la-lfit.lo libMoleculesToTrianglesCXXClasses_la-DishyBase.lo libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.lo libMoleculesToTrianglesCXXClasses_la-tubes.lo ../../MoleculesToTriangles/CXXSurface/libMoleculesToTrianglesCXXSurface.la ../../coot-utils/libcoot-coord-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/libMoleculesToTrianglesCXXClasses_la-AtomPropertyRampColorRule.o .libs/libMoleculesToTrianglesCXXClasses_la-DirectedPositionedEntity.o .libs/libMoleculesToTrianglesCXXClasses_la-Representation.o .libs/libMoleculesToTrianglesCXXClasses_la-BallsPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-DiscreteSegment.o .libs/libMoleculesToTrianglesCXXClasses_la-RepresentationInstance.o .libs/libMoleculesToTrianglesCXXClasses_la-BondsPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-DisplayPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-RotatedTranslatedScaledEntity.o .libs/libMoleculesToTrianglesCXXClasses_la-BoxSectionPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-Light.o .libs/libMoleculesToTrianglesCXXClasses_la-CXXMatrix.o .libs/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentation.o .libs/libMoleculesToTrianglesCXXClasses_la-SecondaryColorScheme.o .libs/libMoleculesToTrianglesCXXClasses_la-MyMolecule.o .libs/libMoleculesToTrianglesCXXClasses_la-SolidColorRule.o .libs/libMoleculesToTrianglesCXXClasses_la-ColorRule.o .libs/libMoleculesToTrianglesCXXClasses_la-NRStuff.o .libs/libMoleculesToTrianglesCXXClasses_la-SpherePrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-ColorScheme.o .libs/libMoleculesToTrianglesCXXClasses_la-Polyhedron.o .libs/libMoleculesToTrianglesCXXClasses_la-SticksPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-CompoundSelection.o .libs/libMoleculesToTrianglesCXXClasses_la-PositionedEntity.o .libs/libMoleculesToTrianglesCXXClasses_la-SurfacePrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-CylinderPoint.o .libs/libMoleculesToTrianglesCXXClasses_la-Renderer.o .libs/libMoleculesToTrianglesCXXClasses_la-VertexColorNormalPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-CylindersPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-oglPolyhedron.o .libs/libMoleculesToTrianglesCXXClasses_la-MolecularRepresentationInstance.o .libs/libMoleculesToTrianglesCXXClasses_la-Quaternion.o .libs/libMoleculesToTrianglesCXXClasses_la-Vector2.o .libs/libMoleculesToTrianglesCXXClasses_la-Vector3.o .libs/libMoleculesToTrianglesCXXClasses_la-lfit.o .libs/libMoleculesToTrianglesCXXClasses_la-DishyBase.o .libs/libMoleculesToTrianglesCXXClasses_la-FlatFanPrimitive.o .libs/libMoleculesToTrianglesCXXClasses_la-tubes.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles/CXXSurface/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -L/usr/lib/aarch64-linux-gnu ../../MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so ../../coot-utils/.libs/libcoot-coord-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libMoleculesToTrianglesCXXClasses.so.0 -o .libs/libMoleculesToTrianglesCXXClasses.so.0.0.0 ../../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libgomp.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXClasses.so.0" && ln -s "libMoleculesToTrianglesCXXClasses.so.0.0.0" "libMoleculesToTrianglesCXXClasses.so.0") libtool: link: (cd ".libs" && rm -f "libMoleculesToTrianglesCXXClasses.so" && ln -s "libMoleculesToTrianglesCXXClasses.so.0.0.0" "libMoleculesToTrianglesCXXClasses.so") libtool: link: ( cd ".libs" && rm -f "libMoleculesToTrianglesCXXClasses.la" && ln -s "../libMoleculesToTrianglesCXXClasses.la" "libMoleculesToTrianglesCXXClasses.la" ) make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles/CXXClasses' make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles' make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles' Making all in pli make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/pli' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o protein-ligand-interactions.lo protein-ligand-interactions.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o flev-annotations.lo flev-annotations.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o pi-stacking.lo pi-stacking.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o sdf-interface.lo sdf-interface.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o residue-circles.lo residue-circles.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o optimise-residue-circles.lo optimise-residue-circles.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o flev.lo flev.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o flev-attached-hydrogens.lo flev-attached-hydrogens.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o dots-representation-info.lo dots-representation-info.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c sdf-interface.cc -fPIC -DPIC -o .libs/sdf-interface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c residue-circles.cc -fPIC -DPIC -o .libs/residue-circles.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c protein-ligand-interactions.cc -fPIC -DPIC -o .libs/protein-ligand-interactions.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c optimise-residue-circles.cc -fPIC -DPIC -o .libs/optimise-residue-circles.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c flev-attached-hydrogens.cc -fPIC -DPIC -o .libs/flev-attached-hydrogens.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c flev-annotations.cc -fPIC -DPIC -o .libs/flev-annotations.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c dots-representation-info.cc -fPIC -DPIC -o .libs/dots-representation-info.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c pi-stacking.cc -fPIC -DPIC -o .libs/pi-stacking.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/include/python3.13 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c flev.cc -fPIC -DPIC -o .libs/flev.o In file included from ../lidia-core/svg-container.hh:7, from flev.cc:24: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/svg-molecule.hh:29, from residue-circle.hh:8, from optimise-residue-circles.hh:8, from optimise-residue-circles.cc:24: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/svg-container.hh:7, from flev.hh:25, from residue-circles.cc:28: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ residue-circle.hh: In member function 'std::pair residue_circle_t::solvent_exposures() const': residue-circle.hh:96:56: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 96 | std::pair solvent_exposures() const { | ^ In file included from flev.hh:28, from flev.cc:27: residue-circle.hh: In member function 'std::pair residue_circle_t::solvent_exposures() const': residue-circle.hh:96:56: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 96 | std::pair solvent_exposures() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from pi-stacking.cc:34: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from sdf-interface-for-export.hh:31, from sdf-interface.cc:49: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ flev.cc: In member function 'std::pair flev_t::flev_residues_extents() const': flev.cc:1162:33: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1162 | flev_t::flev_residues_extents() const { | ^~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/string:53, from ../lidia-core/svg-container.hh:4: /usr/include/c++/15/bits/stl_pair.h: In instantiation of 'constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = double&; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper::type>::__type = double; typename decay<_Tp2>::type = double]': flev.cc:1356:47: required from here 1356 | hex_points[ipt_0] = std::make_pair(pt_0.x, pt_0.y); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_pair.h:1164:5: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1164 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from sdf-interface.cc:147: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from flev.hh:28: residue-circle.hh: In member function 'std::pair residue_circle_t::solvent_exposures() const': residue-circle.hh:96:56: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 96 | std::pair solvent_exposures() const { | ^ ../lidia-core/lig-build.hh: In instantiation of 'std::pair lig_build::molecule_t::ligand_extents() const [with Ta = svg_atom_t; Tb = svg_bond_t]': residue-circles.cc:90:82: required from here 90 | std::pair l_e_pair = mol.ligand_extents(); | ~~~~~~~~~~~~~~~~~~^~ ../lidia-core/lig-build.hh:1538:7: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1538 | ligand_extents() const { | ^~~~~~~~~~~~~~ ../lidia-core/lig-build.hh: In instantiation of 'std::pair lig_build::molecule_t::ligand_extents() const [with Ta = svg_atom_t; Tb = svg_bond_t]': flev.cc:288:79: required from here 288 | std::pair l_e_pair = mol.ligand_extents(); | ~~~~~~~~~~~~~~~~~~^~ ../lidia-core/lig-build.hh:1538:7: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1538 | ligand_extents() const { | ^~~~~~~~~~~~~~ flev.cc: In member function 'svg_container_t flev_t::draw_annotated_stacking_line(const lig_build::pos_t&, const lig_build::pos_t&, int, const clipper::Coord_orth&)': flev.cc:1356:47: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1356 | hex_points[ipt_0] = std::make_pair(pt_0.x, pt_0.y); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:64, from /usr/include/c++/15/string:53, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from sdf-interface.cc:37: In constructor 'constexpr std::pair<_T1, _T2>::pair(_U1&&, _U2&&) [with _U1 = bool; _U2 = clipper::Coord_orth&; _T1 = bool; _T2 = clipper::Coord_orth]', inlined from 'std::pair chemical_features::get_normal_info(RDKit::MolChemicalFeature*, const RDKit::ROMol&, const RDKit::Conformer&)' at sdf-interface.cc:419:56: /usr/include/c++/15/bits/stl_pair.h:464:42: warning: 'v' may be used uninitialized [-Wmaybe-uninitialized] 464 | : first(std::forward<_U1>(__x)), second(std::forward<_U2>(__y)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sdf-interface.cc: In function 'std::pair chemical_features::get_normal_info(RDKit::MolChemicalFeature*, const RDKit::ROMol&, const RDKit::Conformer&)': sdf-interface.cc:409:24: note: 'v' declared here 409 | clipper::Coord_orth v; | ^ flev.cc: In member function 'std::pair flev_t::flev_residues_extents() const': flev.cc:1162:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1162 | flev_t::flev_residues_extents() const { | ^~~~~~ flev.cc: In member function 'std::pair flev_t::contour_fragment::get_coords(int, int, int) const': flev.cc:2155:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2155 | flev_t::contour_fragment::get_coords(int ii, int jj, int coord_indx) const { | ^~~~~~ ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::molecule_t::ligand_extents() const [with Ta = svg_atom_t; Tb = svg_bond_t]': ../lidia-core/lig-build.hh:1538:7: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1538 | ligand_extents() const { | ^~~~~~~~~~~~~~ flev.cc: In member function 'svg_container_t flev_t::ligand_grid::show_contour(float, bool, const std::string&, const std::vector&, const std::vector > >&)': flev.cc:1793:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1793 | flev_t::ligand_grid::show_contour(float contour_level, | ^~~~~~ flev.cc: In member function 'svg_container_t flev_t::draw_substitution_contour()': flev.cc:1035:1: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1035 | flev_t::draw_substitution_contour() { | ^~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-pli.la -rpath /usr/lib/aarch64-linux-gnu protein-ligand-interactions.lo flev-annotations.lo pi-stacking.lo sdf-interface.lo residue-circles.lo optimise-residue-circles.lo flev.lo flev-attached-hydrogens.lo dots-representation-info.lo ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-coord-extras.la ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/protein-ligand-interactions.o .libs/flev-annotations.o .libs/pi-stacking.o .libs/sdf-interface.o .libs/residue-circles.o .libs/optimise-residue-circles.o .libs/flev.o .libs/flev-attached-hydrogens.o .libs/dots-representation-info.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../lidia-core/.libs/libcoot-lidia-core.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-pli.so.0 -o .libs/libcoot-pli.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 47 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot-pli.so.0" && ln -s "libcoot-pli.so.0.0.0" "libcoot-pli.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-pli.so" && ln -s "libcoot-pli.so.0.0.0" "libcoot-pli.so") libtool: link: ( cd ".libs" && rm -f "libcoot-pli.la" && ln -s "../libcoot-pli.la" "libcoot-pli.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/pli' Making all in greg-tests make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/greg-tests' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/greg-tests' Making all in python-tests make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/python-tests' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/python-tests' Making all in cootilus make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/cootilus' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o nucleicacid_db.lo nucleicacid_db.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o nautilus-tools.lo nautilus-tools.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o nautilus-ss-find.lo nautilus-ss-find.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o nautilus-join.lo nautilus-join.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o nautilus-target.lo nautilus-target.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cootilus-build.lo cootilus-build.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c nautilus-target.cpp -fPIC -DPIC -o .libs/nautilus-target.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c nautilus-tools.cpp -fPIC -DPIC -o .libs/nautilus-tools.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c nautilus-ss-find.cpp -fPIC -DPIC -o .libs/nautilus-ss-find.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c nautilus-join.cpp -fPIC -DPIC -o .libs/nautilus-join.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c nucleicacid_db.cpp -fPIC -DPIC -o .libs/nucleicacid_db.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cootilus-build.cpp -fPIC -DPIC -o .libs/cootilus-build.o /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcootilus.la -rpath /usr/lib/aarch64-linux-gnu nucleicacid_db.lo nautilus-tools.lo nautilus-ss-find.lo nautilus-join.lo nautilus-target.lo cootilus-build.lo -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/nucleicacid_db.o .libs/nautilus-tools.o .libs/nautilus-ss-find.o .libs/nautilus-join.o .libs/nautilus-target.o .libs/cootilus-build.o -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcootilus.so.0 -o .libs/libcootilus.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. libtool: link: (cd ".libs" && rm -f "libcootilus.so.0" && ln -s "libcootilus.so.0.0.0" "libcootilus.so.0") libtool: link: (cd ".libs" && rm -f "libcootilus.so" && ln -s "libcootilus.so.0.0.0" "libcootilus.so") libtool: link: ( cd ".libs" && rm -f "libcootilus.la" && ln -s "../libcootilus.la" "libcootilus.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/cootilus' Making all in pyrogen make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/pyrogen' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mmff-restraints.lo mmff-restraints.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o py-restraints.lo py-restraints.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cairo-molecule.lo cairo-molecule.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o atom_types.lo atom_types.cc swig -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -o pyrogen-swig.cc -python -shadow -c++ ../pyrogen/pyrogen-swig.i /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 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-DPKGDATADIR=\"/usr/share/coot\" -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cairo-molecule.cc -fPIC -DPIC -o .libs/cairo-molecule.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mmff-restraints.cc -fPIC -DPIC -o .libs/mmff-restraints.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 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atom_types.cc -fPIC -DPIC -o .libs/atom_types.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c restraints-boost.cc -fPIC -DPIC -o .libs/restraints-boost.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c restraints.cc -fPIC -DPIC -o .libs/restraints.o ../pyrogen/restraints.hh:57: Warning 389: operator[] ignored (consider using %extend) /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o pyrogen-swig.lo pyrogen-swig.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -pthread -I/usr/include -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/usr/include/python3.13 -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c pyrogen-swig.cc -fPIC -DPIC -o .libs/pyrogen-swig.o In file included from cairo-molecule.hh:34, from cairo-molecule.cc:27: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cairo-molecule.hh:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from atom_types.cc:34: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from mmff-restraints.hh:27, from mmff-restraints.cc:23: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from ../pyrogen/restraints-private.hh:33, from ../pyrogen/restraints.hh:39, from pyrogen-swig.cc:5383: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ ../lidia-core/lig-build.hh: In instantiation of 'std::pair lig_build::molecule_t::ligand_extents() const [with Ta = coot::cairo_atom_t; Tb = coot::cairo_bond_t]': cairo-molecule.cc:687:70: required from here 687 | std::pair ext = ligand_extents(); | ~~~~~~~~~~~~~~^~ ../lidia-core/lig-build.hh:1538:7: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1538 | ligand_extents() const { | ^~~~~~~~~~~~~~ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from restraints-private.hh:33, from restraints.hh:39, from restraints.cc:26: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from restraints-private.hh:33, from restraints.hh:39, from py-restraints.cc:30: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from restraints.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../ideal/simple-restraint.hh:162, from restraints-boost.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from restraints.cc:34: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from restraints-boost.cc:37: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot_py_restraints.la -rpath /usr/lib/aarch64-linux-gnu mmff-restraints.lo py-restraints.lo cairo-molecule.lo atom_types.lo ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu -lpython3.13 -lcairo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/mmff-restraints.o .libs/py-restraints.o .libs/cairo-molecule.o .libs/atom_types.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../geometry/.libs/libcoot-geometry.so ../lidia-core/.libs/libcoot-lidia-core.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu -lpython3.13 -lcairo -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot_py_restraints.so.0 -o .libs/libcoot_py_restraints.so.0.0.0 /usr/lib/aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitAlignment.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 48 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot_py_restraints.so.0" && ln -s "libcoot_py_restraints.so.0.0.0" "libcoot_py_restraints.so.0") libtool: link: (cd ".libs" && rm -f "libcoot_py_restraints.so" && ln -s "libcoot_py_restraints.so.0.0.0" "libcoot_py_restraints.so") libtool: link: ( cd ".libs" && rm -f "libcoot_py_restraints.la" && ln -s "../libcoot_py_restraints.la" "libcoot_py_restraints.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -module -Wl,-z,relro -o pyrogen_boost.la -rpath /usr/lib/python3/dist-packages restraints-boost.lo libcoot_py_restraints.la ../pli/libcoot-pli.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../lidia-core/libcoot-lidia-core.la -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lboost_python313 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/restraints-boost.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/pyrogen/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/pli/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ideal/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coords/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs ./.libs/libcoot_py_restraints.so ../pli/.libs/libcoot-pli.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-coord-utils.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so ../lidia-core/.libs/libcoot-lidia-core.so -lmmdb2 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lboost_python313 -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,pyrogen_boost.so.0 -o .libs/pyrogen_boost.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitAlignment.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitEigenSolvers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDepictor.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolChemicalFeatures.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitFileParsers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitRDGeometryLib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitGraphMol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitShapeHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitFingerprints.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 40 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "pyrogen_boost.so.0" && ln -s "pyrogen_boost.so.0.0.0" "pyrogen_boost.so.0") libtool: link: (cd ".libs" && rm -f "pyrogen_boost.so" && ln -s "pyrogen_boost.so.0.0.0" "pyrogen_boost.so") libtool: link: ( cd ".libs" && rm -f "pyrogen_boost.la" && ln -s "../pyrogen_boost.la" "pyrogen_boost.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -module -Wl,-z,relro -o _pyrogen_swig.la -rpath /usr/lib/python3/dist-packages pyrogen-swig.lo restraints.lo libcoot_py_restraints.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../analysis/libcoot-analysis.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu -lboost_python313 -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -L/usr/lib/aarch64-linux-gnu -lpython3.13 -lcairo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/pyrogen-swig.o .libs/restraints.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/pyrogen/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ideal/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/analysis/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ./.libs/libcoot_py_restraints.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../analysis/.libs/libcoot-analysis.so ../geometry/.libs/libcoot-geometry.so ../utils/.libs/libcoot-utils.so -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -L/usr/lib/aarch64-linux-gnu -lboost_python313 -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lpython3.13 -lcairo -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,_pyrogen_swig.so.0 -o .libs/_pyrogen_swig.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitAlignment.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitEigenSolvers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDepictor.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolChemicalFeatures.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitFileParsers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitRDGeometryLib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitGraphMol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitShapeHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitFingerprints.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolAlign.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 50 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "_pyrogen_swig.so.0" && ln -s "_pyrogen_swig.so.0.0.0" "_pyrogen_swig.so.0") libtool: link: (cd ".libs" && rm -f "_pyrogen_swig.so" && ln -s "_pyrogen_swig.so.0.0.0" "_pyrogen_swig.so") libtool: link: ( cd ".libs" && rm -f "_pyrogen_swig.la" && ln -s "../_pyrogen_swig.la" "_pyrogen_swig.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/pyrogen' Making all in data make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data' Making all in rama-coeffs make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data/rama-coeffs' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data/rama-coeffs' Making all in cho-models make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data/cho-models' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data/cho-models' Making all in cho-acedrg make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data/cho-acedrg' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data/cho-acedrg' Making all in cho-links make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data/cho-links' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data/cho-links' Making all in metal make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data/metal' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data/metal' Making all in pdb-templates make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data/pdb-templates' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data/pdb-templates' make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/data' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data' make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/data' Making all in man make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/man' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/man' Making all in rama-data make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/rama-data' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/rama-data' Making all in doc make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/doc' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/doc' Making all in glTF make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/glTF' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/glTF' Making all in pixmaps make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/pixmaps' Making all in icons make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/pixmaps/icons' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/pixmaps/icons' make[3]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/pixmaps' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/pixmaps' make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/pixmaps' Making all in textures make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/textures' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/textures' Making all in sounds make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/sounds' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/sounds' Making all in reference-structures make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/reference-structures' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/reference-structures' Making all in api make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/api' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule.lo coot-molecule.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-colour.lo coot-colour.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o add-terminal-residue.lo add-terminal-residue.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 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-DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-maps.cc -fPIC -DPIC -o .libs/coot-molecule-maps.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-modelling.cc -fPIC -DPIC -o .libs/molecules-container-modelling.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rama-plot-phi-psi.cc -fPIC -DPIC -o .libs/rama-plot-phi-psi.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c colour-functions.cc -fPIC -DPIC -o .libs/colour-functions.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-bonds.cc -fPIC -DPIC -o .libs/coot-molecule-bonds.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-merge-molecules.cc -fPIC -DPIC -o .libs/coot-molecule-merge-molecules.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 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-DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container.cc -fPIC -DPIC -o .libs/molecules-container.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o molecules-container-ligand-fitting.lo molecules-container-ligand-fitting.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-ligand-fitting.cc -fPIC -DPIC -o .libs/molecules-container-ligand-fitting.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o phi-psi-prob.lo phi-psi-prob.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c phi-psi-prob.cc -fPIC -DPIC -o .libs/phi-psi-prob.o In file included from coot-molecule.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-moltris.lo coot-molecule-moltris.cc In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from coot-molecule.cc:37: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-moltris.cc -fPIC -DPIC -o .libs/coot-molecule-moltris.o In file included from coot-molecule-maps.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-replace-fragment.lo coot-molecule-replace-fragment.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-replace-fragment.cc -fPIC -DPIC -o .libs/coot-molecule-replace-fragment.o In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container-modelling.cc:4: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../ligand/ligand.hh:32, from ../ligand/residue_by_phi_psi.hh:37, from add-terminal-residue.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-backup.lo coot-molecule-backup.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-backup.cc -fPIC -DPIC -o .libs/coot-molecule-backup.o In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-merge-molecules.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-bonds.cc:39: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../MoleculesToTriangles/CXXClasses/RotatedTranslatedScaledEntity.h:28, from ../MoleculesToTriangles/CXXClasses/Light.h:29, from coot-molecule-moltris.cc:31: ../MoleculesToTriangles/CXXSurface/CXXCoord.h:40: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 40 | #pragma omp simd ../MoleculesToTriangles/CXXSurface/CXXCoord.h:44: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 44 | #pragma omp simd ../MoleculesToTriangles/CXXSurface/CXXCoord.h:57: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 57 | #pragma omp simd ../MoleculesToTriangles/CXXSurface/CXXCoord.h:65: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 65 | #pragma omp simd ../MoleculesToTriangles/CXXSurface/CXXCoord.h:73: warning: ignoring '#pragma omp simd' [-Wunknown-pragmas] 73 | #pragma omp simd In file included from ../mini-mol/mini-mol.hh:29, from ../ligand/ligand.hh:32, from ../ligand/wligand.hh:25, from molecules-container-ligand-fitting.cc:5: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../ideal/simple-restraint.hh:174, from coot-molecule.hh:50, from coot-molecule.cc:38: ../ideal/zo-rama.hh: In member function 'std::pair zo::rama_coeffs::df(const zo::realtype&, const zo::realtype&) const': ../ideal/zo-rama.hh:85:98: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 85 | std::pair df(const realtype &rama_phi, const realtype &rama_psi) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-validation.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule-backup.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule.hh:50, from coot-molecule-maps.cc:36: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-moltris.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-molecule.hh:50, from molecules-container.hh:23, from molecules-container-ligand-fitting.cc:7: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-replace-fragment.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule.hh:50, from coot-molecule-backup.cc:29: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-bonds-instanced.lo coot-molecule-bonds-instanced.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-bonds-instanced.cc -fPIC -DPIC -o .libs/coot-molecule-bonds-instanced.o In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-bonds-instanced.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o molecules-container-mmrrcc.lo molecules-container-mmrrcc.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-mmrrcc.cc -fPIC -DPIC -o .libs/molecules-container-mmrrcc.o molecules-container-ligand-fitting.cc: In member function 'float molecules_container_t::fit_to_map_by_random_jiggle_with_blur_using_cid(int, int, const std::string&, float, int, float)': molecules-container-ligand-fitting.cc:409:53: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 409 | auto p = coot::util::mean_and_variance(xmap); | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o molecules-container-gltf.lo molecules-container-gltf.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-gltf.cc -fPIC -DPIC -o .libs/molecules-container-gltf.o In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container-mmrrcc.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o mmcif-tests.lo mmcif-tests.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c mmcif-tests.cc -fPIC -DPIC -o .libs/mmcif-tests.o In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ncs-ghosts.lo ncs-ghosts.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ncs-ghosts.cc -fPIC -DPIC -o .libs/ncs-ghosts.o In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container-gltf.cc:4: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-refine.lo coot-molecule-refine.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-refine.cc -fPIC -DPIC -o .libs/coot-molecule-refine.o In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o molecules-container-superpose.lo molecules-container-superpose.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-superpose.cc -fPIC -DPIC -o .libs/molecules-container-superpose.o In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o rigid-body-fit.lo rigid-body-fit.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c rigid-body-fit.cc -fPIC -DPIC -o .libs/rigid-body-fit.o In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o moorhen-h-bonds.lo moorhen-h-bonds.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c moorhen-h-bonds.cc -fPIC -DPIC -o .libs/moorhen-h-bonds.o In file included from ../coot-utils/json.hpp:39, from molecules-container-superpose.cc:6: /usr/include/c++/15/ciso646:49:6: warning: #warning " is not a standard header since C++20, use to detect implementation-specific macros" [-Wcpp] 49 | # warning " is not a standard header since C++20, use to detect implementation-specific macros" | ^~~~~~~ In file included from ../mini-mol/mini-mol.hh:29, from rigid-body-fit.hh:7, from rigid-body-fit.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o molecules-container-bucca-ml-growing.lo molecules-container-bucca-ml-growing.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-bucca-ml-growing.cc -fPIC -DPIC -o .libs/molecules-container-bucca-ml-growing.o In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-refine.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o instancing.lo instancing.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c instancing.cc -fPIC -DPIC -o .libs/instancing.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o molecules-container-maps.lo molecules-container-maps.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-maps.cc -fPIC -DPIC -o .libs/molecules-container-maps.o In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container-superpose.cc:4: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from moorhen-h-bonds.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-change-chain-id.lo coot-molecule-change-chain-id.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-change-chain-id.cc -fPIC -DPIC -o .libs/coot-molecule-change-chain-id.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-modelling.lo coot-molecule-modelling.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-modelling.cc -fPIC -DPIC -o .libs/coot-molecule-modelling.o In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o blender-mesh.lo blender-mesh.cc In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container-bucca-ml-growing.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c blender-mesh.cc -fPIC -DPIC -o .libs/blender-mesh.o In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container-maps.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule-modelling.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-change-chain-id.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-molecule-blender.lo coot-molecule-blender.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-molecule-blender.cc -fPIC -DPIC -o .libs/coot-molecule-blender.o In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o molecules-container-blender.lo molecules-container-blender.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c molecules-container-blender.cc -fPIC -DPIC -o .libs/molecules-container-blender.o In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from coot-molecule.hh:50, from coot-molecule-modelling.cc:4: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from coot-molecule-blender.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ghost-molecule-display.lo ghost-molecule-display.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ghost-molecule-display.cc -fPIC -DPIC -o .libs/ghost-molecule-display.o In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from molecules-container-blender.cc:3: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o model-analysis.lo model-analysis.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SSMLIB -DCLIPPER_HAS_TOP8000 -DMMDB_HAS_LINK_DISTANCE -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -I/usr/include/python3.13 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/pixman-1 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c model-analysis.cc -fPIC -DPIC -o .libs/model-analysis.o In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/atom-tree.hh:33, from coot-molecule.hh:44, from molecules-container.hh:23, from model-analysis.cc:1: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from coot-molecule.hh:50: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-molecule.hh:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from coot-molecule.hh:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 ../MoleculesToTriangles/CXXClasses/libMoleculesToTrianglesCXXClasses.la ../MoleculesToTriangles/CXXSurface/libMoleculesToTrianglesCXXSurface.la ../ligand/libcoot-ligand.la ../pli/libcoot-pli.la ../ideal/libcoot-ideal.la ../lidia-core/libcoot-lidia-core.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../analysis/libcoot-analysis.la ../density-contour/libcoot-isosurface.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coords/libcoot-coords.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lssm -lmmdb2 -lmmdb2 -lsqlite3 -lgsl -lgslcblas -lm -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -Wl,-z,relro -o libcoot-api.la -rpath /usr/lib/aarch64-linux-gnu coot-molecule.lo coot-colour.lo add-terminal-residue.lo rama-plot-phi-psi.lo colour-functions.lo coot-molecule-maps.lo coot-molecule-merge-molecules.lo coot-molecule-bonds.lo coot-molecule-validation.lo molecules-container-modelling.lo molecules-container.lo make-a-dodec.lo molecules-container-ligand-fitting.lo phi-psi-prob.lo coot-molecule-moltris.lo coot-molecule-replace-fragment.lo coot-molecule-backup.lo coot-molecule-bonds-instanced.lo molecules-container-mmrrcc.lo molecules-container-gltf.lo mmcif-tests.lo ncs-ghosts.lo coot-molecule-refine.lo molecules-container-superpose.lo rigid-body-fit.lo moorhen-h-bonds.lo molecules-container-bucca-ml-growing.lo instancing.lo molecules-container-maps.lo coot-molecule-change-chain-id.lo coot-molecule-modelling.lo blender-mesh.lo coot-molecule-blender.lo molecules-container-blender.lo ghost-molecule-display.lo model-analysis.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/coot-molecule.o .libs/coot-colour.o .libs/add-terminal-residue.o .libs/rama-plot-phi-psi.o .libs/colour-functions.o .libs/coot-molecule-maps.o .libs/coot-molecule-merge-molecules.o .libs/coot-molecule-bonds.o .libs/coot-molecule-validation.o .libs/molecules-container-modelling.o .libs/molecules-container.o .libs/make-a-dodec.o .libs/molecules-container-ligand-fitting.o .libs/phi-psi-prob.o .libs/coot-molecule-moltris.o .libs/coot-molecule-replace-fragment.o .libs/coot-molecule-backup.o .libs/coot-molecule-bonds-instanced.o .libs/molecules-container-mmrrcc.o .libs/molecules-container-gltf.o .libs/mmcif-tests.o .libs/ncs-ghosts.o .libs/coot-molecule-refine.o .libs/molecules-container-superpose.o .libs/rigid-body-fit.o .libs/moorhen-h-bonds.o .libs/molecules-container-bucca-ml-growing.o .libs/instancing.o .libs/molecules-container-maps.o .libs/coot-molecule-change-chain-id.o .libs/coot-molecule-modelling.o .libs/blender-mesh.o .libs/coot-molecule-blender.o .libs/molecules-container-blender.o .libs/ghost-molecule-display.o .libs/model-analysis.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles/CXXClasses/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/MoleculesToTriangles/CXXSurface/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ligand/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/pli/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ideal/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/cootaneer/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/db-main/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ccp4mg-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/analysis/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/density-contour/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coords/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../MoleculesToTriangles/CXXClasses/.libs/libMoleculesToTrianglesCXXClasses.so ../MoleculesToTriangles/CXXSurface/.libs/libMoleculesToTrianglesCXXSurface.so ../ligand/.libs/libcoot-ligand.so ../pli/.libs/libcoot-pli.so ../ideal/.libs/libcoot-ideal.so ../lidia-core/.libs/libcoot-lidia-core.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../analysis/.libs/libcoot-analysis.so ../density-contour/.libs/libcoot-isosurface.so ../coot-utils/.libs/libcoot-map-heavy.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coords/.libs/libcoot-coords.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lssm -lmmdb2 -lsqlite3 -lgsl -lgslcblas -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lpthread -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -fopenmp -Wl,-soname -Wl,libcoot-api.so.0 -o .libs/libcoot-api.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libssm.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 49 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot-api.so.0" && ln -s "libcoot-api.so.0.0.0" "libcoot-api.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-api.so" && ln -s "libcoot-api.so.0.0.0" "libcoot-api.so") libtool: link: ( cd ".libs" && rm -f "libcoot-api.la" && ln -s "../libcoot-api.la" "libcoot-api.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/api' Making all in layla make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/layla' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o main.o main.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o layla_embedded.lo layla_embedded.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o generators.lo generators.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o notifier.lo notifier.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz 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-I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligand_editor_canvas/core.lo ligand_editor_canvas/core.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 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-I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c generators.cpp -fPIC -DPIC -o .libs/generators.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c layla_embedded.cpp -fPIC -DPIC -o .libs/layla_embedded.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c notifier.cpp -fPIC -DPIC -o .libs/notifier.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ui.cpp -fPIC -DPIC -o .libs/ui.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c state.cpp -fPIC -DPIC -o .libs/state.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c utils.cpp -fPIC -DPIC -o .libs/utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c qed.cpp -fPIC -DPIC -o .libs/qed.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c signals.cpp -fPIC -DPIC -o .libs/signals.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand_editor_canvas.cpp -fPIC -DPIC -o .libs/ligand_editor_canvas.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand_editor_canvas/core.cpp -fPIC -DPIC -o ligand_editor_canvas/.libs/core.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c python_utils.cpp -fPIC -DPIC -o .libs/python_utils.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligand_editor_canvas/model.lo ligand_editor_canvas/model.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand_editor_canvas/model.cpp -fPIC -DPIC -o ligand_editor_canvas/.libs/model.o In file included from python_utils.cpp:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligand_editor_canvas/tools.lo ligand_editor_canvas/tools.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand_editor_canvas/tools.cpp -fPIC -DPIC -o ligand_editor_canvas/.libs/tools.o utils.cpp: In function 'void coot::layla::remove_non_polar_hydrogens(RDKit::RWMol&)': utils.cpp:69:30: warning: 'void RDKit::MolOps::removeHs(RDKit::RWMol&, bool, bool, bool)' is deprecated: Please use the version with RemoveHsParameters [-Wdeprecated-declarations] 69 | RDKit::MolOps::removeHs(mol, implicit_only, update_explicit_count, sanitize); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from utils.cpp:23: /usr/include/rdkit/GraphMol/MolOps.h:307:28: note: declared here 307 | RDKIT_GRAPHMOL_EXPORT void removeHs(RWMol &mol, bool implicitOnly, | ^~~~~~~~ In file included from main.cpp:25: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o ligand_editor_canvas/render.lo ligand_editor_canvas/render.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DCLIPPER_HAS_TOP8000 -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DUSE_PYTHON=1 -I/usr/include/python3.13 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -pthread -DUSE_LIBCURL=1 -DMMDB_HAS_LINK_DISTANCE -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c ligand_editor_canvas/render.cpp -fPIC -DPIC -o ligand_editor_canvas/.libs/render.o In file included from ui.cpp:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from /usr/include/glib-2.0/gobject/gobject.h:30, from /usr/include/glib-2.0/gobject/gbinding.h:31, from /usr/include/glib-2.0/glib-object.h:24, from /usr/include/gtk-4.0/gtk/css/gtkcssenumtypes.h:11, from /usr/include/gtk-4.0/gtk/css/gtkcss.h:33, from /usr/include/gtk-4.0/gtk/gtk.h:29, from ui.hpp:24, from ui.cpp:22: ui.cpp: In lambda function: ui.cpp:217:72: warning: 'GtkStyleContext* gtk_widget_get_style_context(GtkWidget*)' is deprecated [-Wdeprecated-declarations] 217 | GtkStyleContext *context = gtk_widget_get_style_context(GTK_WIDGET(smiles_label)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ ui.cpp:150:48: note: in expansion of macro 'G_CALLBACK' 150 | g_signal_connect(canvas, "smiles-changed", G_CALLBACK(+[](CootLigandEditorCanvas* self, gpointer user_data){ | ^~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33: /usr/include/gtk-4.0/gtk/gtkwidget.h:713:19: note: declared here 713 | GtkStyleContext * gtk_widget_get_style_context (GtkWidget *widget); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ui.cpp:218:48: warning: 'void gtk_style_context_add_provider(GtkStyleContext*, GtkStyleProvider*, guint)' is deprecated [-Wdeprecated-declarations] 218 | gtk_style_context_add_provider (context, GTK_STYLE_PROVIDER (provider), GTK_STYLE_PROVIDER_PRIORITY_APPLICATION); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ ui.cpp:150:48: note: in expansion of macro 'G_CALLBACK' 150 | g_signal_connect(canvas, "smiles-changed", G_CALLBACK(+[](CootLigandEditorCanvas* self, gpointer user_data){ | ^~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:268: /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:64:6: note: declared here 64 | void gtk_style_context_add_provider (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ui.cpp:219:45: warning: 'void gtk_style_context_add_class(GtkStyleContext*, const char*)' is deprecated [-Wdeprecated-declarations] 219 | gtk_style_context_add_class (context, "smiles_label"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ ui.cpp:150:48: note: in expansion of macro 'G_CALLBACK' 150 | g_signal_connect(canvas, "smiles-changed", G_CALLBACK(+[](CootLigandEditorCanvas* self, gpointer user_data){ | ^~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:90:10: note: declared here 90 | void gtk_style_context_add_class (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/model.cpp: In member function 'std::pair coot::ligand_editor_canvas::CanvasMolecule::get_on_screen_coords(float, float) const': ligand_editor_canvas/model.cpp:141:85: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 141 | std::pair CanvasMolecule::get_on_screen_coords(float x, float y) const noexcept { | ^~~~~~~~ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from state.cpp:38: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ signals.cpp: In lambda function: signals.cpp:68:36: warning: 'int gtk_combo_box_get_active(GtkComboBox*)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 68 | if(gtk_combo_box_get_active(cb) == -1) { | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:94, from signals.cpp:22: /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:84:15: note: declared here 84 | int gtk_combo_box_get_active (GtkComboBox *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp:69:37: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 69 | gtk_combo_box_set_active(cb,0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp: In function 'void layla_on_apply(GtkButton*, gpointer)': signals.cpp:73:34: warning: 'void gtk_combo_box_text_remove_all(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 73 | gtk_combo_box_text_remove_all(GTK_COMBO_BOX_TEXT(molecule_combobox)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:95: /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:55:15: note: declared here 55 | void gtk_combo_box_text_remove_all (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp:84:43: warning: 'void gtk_combo_box_text_append_text(GtkComboBoxText*, const char*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 84 | gtk_combo_box_text_append_text(GTK_COMBO_BOX_TEXT(molecule_combobox), smiles.c_str()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:42:15: note: declared here 42 | void gtk_combo_box_text_append_text (GtkComboBoxText *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp: In function 'void layla_on_generator_monomer_id_combobox_changed(GtkComboBox*, gpointer)': signals.cpp:98:42: warning: 'const char* gtk_combo_box_get_active_id(GtkComboBox*)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 98 | if(strcmp(gtk_combo_box_get_active_id(self),"Custom") != 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:145:14: note: declared here 145 | const char * gtk_combo_box_get_active_id (GtkComboBox *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp: In function 'void layla_on_generator_program_combobox_changed(GtkComboBox*, gpointer)': signals.cpp:110:42: warning: 'const char* gtk_combo_box_get_active_id(GtkComboBox*)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 110 | if(strcmp(gtk_combo_box_get_active_id(self),"acedrg") == 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:145:14: note: declared here 145 | const char * gtk_combo_box_get_active_id (GtkComboBox *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp: In function 'void layla_on_generator_input_format_combobox_changed(GtkComboBox*, gpointer)': signals.cpp:123:42: warning: 'const char* gtk_combo_box_get_active_id(GtkComboBox*)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 123 | if(strcmp(gtk_combo_box_get_active_id(self),"molfile") == 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:145:14: note: declared here 145 | const char * gtk_combo_box_get_active_id (GtkComboBox *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp: In function 'void layla_on_apply_dialog_accepted(GtkButton*, gpointer)': signals.cpp:161:42: warning: 'const char* gtk_combo_box_get_active_id(GtkComboBox*)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 161 | if(strcmp(gtk_combo_box_get_active_id(GTK_COMBO_BOX(monomer_id_combobox)),"Custom") != 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:145:14: note: declared here 145 | const char * gtk_combo_box_get_active_id (GtkComboBox *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp:162:73: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 162 | auto monomer_id = std::string(gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(monomer_id_combobox))); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp:171:71: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 171 | auto program_name = std::string(gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(program_combobox))); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp:174:76: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 174 | auto input_format_name = std::string(gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(input_format_combobox))); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ signals.cpp:177:74: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 177 | const auto* molecule_smiles_cstr = gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(molecule_combobox)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ state.cpp: In member function 'void coot::layla::LaylaState::load_from_smiles()': state.cpp:143:39: warning: 'GtkWidget* gtk_dialog_new()' is deprecated [-Wdeprecated-declarations] 143 | auto* load_dialog = gtk_dialog_new(); | ~~~~~~~~~~~~~~^~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkappchooserdialog.h:31, from /usr/include/gtk-4.0/gtk/gtk.h:43, from ligand_editor_canvas/render.hpp:25, from ligand_editor_canvas/core.hpp:31, from ligand_editor_canvas.hpp:25, from state.hpp:24, from state.cpp:22: /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:134:12: note: declared here 134 | GtkWidget* gtk_dialog_new (void); | ^~~~~~~~~~~~~~ In file included from /usr/include/glib-2.0/gobject/gobject.h:30, from /usr/include/glib-2.0/gobject/gbinding.h:31, from /usr/include/glib-2.0/glib-object.h:24, from /usr/include/gtk-4.0/gtk/css/gtkcssenumtypes.h:11, from /usr/include/gtk-4.0/gtk/css/gtkcss.h:33, from /usr/include/gtk-4.0/gtk/gtk.h:29: state.cpp: In lambda function: state.cpp:163:28: warning: 'void gtk_dialog_response(GtkDialog*, int)' is deprecated [-Wdeprecated-declarations] 163 | gtk_dialog_response(GTK_DIALOG(user_data), GTK_RESPONSE_ACCEPT); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:162:41: note: in expansion of macro 'G_CALLBACK' 162 | g_signal_connect(entry, "activate", G_CALLBACK(+[](GtkEntry* entry, gpointer user_data){ | ^~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:172:6: note: declared here 172 | void gtk_dialog_response (GtkDialog *dialog, | ^~~~~~~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:172:28: warning: 'void gtk_dialog_response(GtkDialog*, int)' is deprecated [-Wdeprecated-declarations] 172 | gtk_dialog_response(GTK_DIALOG(user_data), GTK_RESPONSE_ACCEPT); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:171:48: note: in expansion of macro 'G_CALLBACK' 171 | g_signal_connect(submit_button, "clicked", G_CALLBACK(+[](GtkButton* btn, gpointer user_data){ | ^~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:172:6: note: declared here 172 | void gtk_dialog_response (GtkDialog *dialog, | ^~~~~~~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:195:51: warning: 'GtkWidget* gtk_message_dialog_new(GtkWindow*, GtkDialogFlags, GtkMessageType, GtkButtonsType, const char*, ...)' is deprecated [-Wdeprecated-declarations] 195 | auto* message = gtk_message_dialog_new( | ~~~~~~~~~~~~~~~~~~~~~~^ 196 | GTK_WINDOW(dialog), | ~~~~~~~~~~~~~~~~~~~ 197 | GTK_DIALOG_DESTROY_WITH_PARENT, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 198 | GTK_MESSAGE_ERROR, | ~~~~~~~~~~~~~~~~~~ 199 | GTK_BUTTONS_CLOSE, | ~~~~~~~~~~~~~~~~~~ 200 | "Error: Molecule could not be constructed.\n%s", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | e.what() | ~~~~~~~~ 202 | ); | ~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:175:47: note: in expansion of macro 'G_CALLBACK' 175 | g_signal_connect(load_dialog, "response", G_CALLBACK(+[](GtkDialog* dialog, gint response_id, gpointer user_data){ | ^~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:193: /usr/include/gtk-4.0/gtk/deprecated/gtkmessagedialog.h:81:12: note: declared here 81 | GtkWidget* gtk_message_dialog_new (GtkWindow *parent, | ^~~~~~~~~~~~~~~~~~~~~~ state.cpp:206:28: warning: 'void gtk_widget_show(GtkWidget*)' is deprecated: Use 'gtk_widget_set_visible or gtk_window_present' instead [-Wdeprecated-declarations] 206 | gtk_widget_show(message); | ~~~~~~~~~~~~~~~^~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:175:47: note: in expansion of macro 'G_CALLBACK' 175 | g_signal_connect(load_dialog, "response", G_CALLBACK(+[](GtkDialog* dialog, gint response_id, gpointer user_data){ | ^~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33: /usr/include/gtk-4.0/gtk/gtkwidget.h:274:12: note: declared here 274 | void gtk_widget_show (GtkWidget *widget); | ^~~~~~~~~~~~~~~ state.cpp: In member function 'void coot::layla::LaylaState::file_import_molecule()': state.cpp:216:44: warning: 'GtkWidget* gtk_dialog_new()' is deprecated [-Wdeprecated-declarations] 216 | GtkWidget *load_dialog = gtk_dialog_new(); | ~~~~~~~~~~~~~~^~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:134:12: note: declared here 134 | GtkWidget* gtk_dialog_new (void); | ^~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:241:28: warning: 'void gtk_dialog_response(GtkDialog*, int)' is deprecated [-Wdeprecated-declarations] 241 | gtk_dialog_response(GTK_DIALOG(user_data), GTK_RESPONSE_ACCEPT); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:172:6: note: declared here 172 | void gtk_dialog_response (GtkDialog *dialog, | ^~~~~~~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:290:55: warning: 'GtkWidget* gtk_message_dialog_new(GtkWindow*, GtkDialogFlags, GtkMessageType, GtkButtonsType, const char*, ...)' is deprecated [-Wdeprecated-declarations] 290 | auto* message = gtk_message_dialog_new( | ~~~~~~~~~~~~~~~~~~~~~~^ 291 | GTK_WINDOW(dialog), | ~~~~~~~~~~~~~~~~~~~ 292 | GTK_DIALOG_DESTROY_WITH_PARENT, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 293 | GTK_MESSAGE_ERROR, | ~~~~~~~~~~~~~~~~~~ 294 | GTK_BUTTONS_CLOSE, | ~~~~~~~~~~~~~~~~~~ 295 | "Error: Monomer \"%s\" could not be found.\n", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 296 | monomer_type.c_str() | ~~~~~~~~~~~~~~~~~~~~ 297 | ); | ~ /usr/include/gtk-4.0/gtk/deprecated/gtkmessagedialog.h:81:12: note: declared here 81 | GtkWidget* gtk_message_dialog_new (GtkWindow *parent, | ^~~~~~~~~~~~~~~~~~~~~~ state.cpp:301:32: warning: 'void gtk_widget_show(GtkWidget*)' is deprecated: Use 'gtk_widget_set_visible or gtk_window_present' instead [-Wdeprecated-declarations] 301 | gtk_widget_show(message); | ~~~~~~~~~~~~~~~^~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:274:12: note: declared here 274 | void gtk_widget_show (GtkWidget *widget); | ^~~~~~~~~~~~~~~ state.cpp: In member function 'void coot::layla::LaylaState::run_choose_element_dialog()': state.cpp:310:49: warning: 'GtkWidget* gtk_dialog_new()' is deprecated [-Wdeprecated-declarations] 310 | auto* choose_element_dialog = gtk_dialog_new(); | ~~~~~~~~~~~~~~^~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:134:12: note: declared here 134 | GtkWidget* gtk_dialog_new (void); | ^~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:334:28: warning: 'void gtk_dialog_response(GtkDialog*, int)' is deprecated [-Wdeprecated-declarations] 334 | gtk_dialog_response(GTK_DIALOG(user_data), GTK_RESPONSE_ACCEPT); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:333:48: note: in expansion of macro 'G_CALLBACK' 333 | g_signal_connect(submit_button, "clicked", G_CALLBACK(+[](GtkButton* btn, gpointer user_data){ | ^~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:172:6: note: declared here 172 | void gtk_dialog_response (GtkDialog *dialog, | ^~~~~~~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:350:51: warning: 'GtkWidget* gtk_message_dialog_new(GtkWindow*, GtkDialogFlags, GtkMessageType, GtkButtonsType, const char*, ...)' is deprecated [-Wdeprecated-declarations] 350 | auto* message = gtk_message_dialog_new( | ~~~~~~~~~~~~~~~~~~~~~~^ 351 | GTK_WINDOW(dialog), | ~~~~~~~~~~~~~~~~~~~ 352 | GTK_DIALOG_DESTROY_WITH_PARENT, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | GTK_MESSAGE_ERROR, | ~~~~~~~~~~~~~~~~~~ 354 | GTK_BUTTONS_CLOSE, | ~~~~~~~~~~~~~~~~~~ 355 | "Error: Invalid symbol:\n%s", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 | e.what() | ~~~~~~~~ 357 | ); | ~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:337:57: note: in expansion of macro 'G_CALLBACK' 337 | g_signal_connect(choose_element_dialog, "response", G_CALLBACK(+[](GtkDialog* dialog, gint response_id, gpointer user_data){ | ^~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkmessagedialog.h:81:12: note: declared here 81 | GtkWidget* gtk_message_dialog_new (GtkWindow *parent, | ^~~~~~~~~~~~~~~~~~~~~~ state.cpp:361:28: warning: 'void gtk_widget_show(GtkWidget*)' is deprecated: Use 'gtk_widget_set_visible or gtk_window_present' instead [-Wdeprecated-declarations] 361 | gtk_widget_show(message); | ~~~~~~~~~~~~~~~^~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:337:57: note: in expansion of macro 'G_CALLBACK' 337 | g_signal_connect(choose_element_dialog, "response", G_CALLBACK(+[](GtkDialog* dialog, gint response_id, gpointer user_data){ | ^~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:274:12: note: declared here 274 | void gtk_widget_show (GtkWidget *widget); | ^~~~~~~~~~~~~~~ state.cpp: In member function 'void coot::layla::LaylaState::file_fetch_molecule()': state.cpp:371:44: warning: 'GtkWidget* gtk_dialog_new()' is deprecated [-Wdeprecated-declarations] 371 | GtkWidget *load_dialog = gtk_dialog_new(); | ~~~~~~~~~~~~~~^~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:134:12: note: declared here 134 | GtkWidget* gtk_dialog_new (void); | ^~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:393:28: warning: 'void gtk_dialog_response(GtkDialog*, int)' is deprecated [-Wdeprecated-declarations] 393 | gtk_dialog_response(GTK_DIALOG(user_data), GTK_RESPONSE_ACCEPT); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:172:6: note: declared here 172 | void gtk_dialog_response (GtkDialog *dialog, | ^~~~~~~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:428:55: warning: 'GtkWidget* gtk_message_dialog_new(GtkWindow*, GtkDialogFlags, GtkMessageType, GtkButtonsType, const char*, ...)' is deprecated [-Wdeprecated-declarations] 428 | auto* message = gtk_message_dialog_new( | ~~~~~~~~~~~~~~~~~~~~~~^ 429 | GTK_WINDOW(dialog), | ~~~~~~~~~~~~~~~~~~~ 430 | GTK_DIALOG_DESTROY_WITH_PARENT, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 431 | GTK_MESSAGE_ERROR, | ~~~~~~~~~~~~~~~~~~ 432 | GTK_BUTTONS_CLOSE, | ~~~~~~~~~~~~~~~~~~ 433 | "Error: Molecule could not be fetched.\n%s", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 434 | e.what() | ~~~~~~~~ 435 | ); | ~ /usr/include/gtk-4.0/gtk/deprecated/gtkmessagedialog.h:81:12: note: declared here 81 | GtkWidget* gtk_message_dialog_new (GtkWindow *parent, | ^~~~~~~~~~~~~~~~~~~~~~ state.cpp:439:32: warning: 'void gtk_widget_show(GtkWidget*)' is deprecated: Use 'gtk_widget_set_visible or gtk_window_present' instead [-Wdeprecated-declarations] 439 | gtk_widget_show(message); | ~~~~~~~~~~~~~~~^~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:274:12: note: declared here 274 | void gtk_widget_show (GtkWidget *widget); | ^~~~~~~~~~~~~~~ state.cpp: In member function 'void coot::layla::LaylaState::save_file(unsigned int, const char*, GtkWindow*)': state.cpp:478:47: warning: 'GtkWidget* gtk_message_dialog_new(GtkWindow*, GtkDialogFlags, GtkMessageType, GtkButtonsType, const char*, ...)' is deprecated [-Wdeprecated-declarations] 478 | auto* message = gtk_message_dialog_new( | ~~~~~~~~~~~~~~~~~~~~~~^ 479 | parent, | ~~~~~~~ 480 | GTK_DIALOG_DESTROY_WITH_PARENT, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 481 | GTK_MESSAGE_ERROR, | ~~~~~~~~~~~~~~~~~~ 482 | GTK_BUTTONS_CLOSE, | ~~~~~~~~~~~~~~~~~~ 483 | "Error: Molecule could not be saved to file.\n%s", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 484 | e.what() | ~~~~~~~~ 485 | ); | ~ /usr/include/gtk-4.0/gtk/deprecated/gtkmessagedialog.h:81:12: note: declared here 81 | GtkWidget* gtk_message_dialog_new (GtkWindow *parent, | ^~~~~~~~~~~~~~~~~~~~~~ state.cpp:486:24: warning: 'void gtk_widget_show(GtkWidget*)' is deprecated: Use 'gtk_widget_set_visible or gtk_window_present' instead [-Wdeprecated-declarations] 486 | gtk_widget_show(message); | ~~~~~~~~~~~~~~~^~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:274:12: note: declared here 274 | void gtk_widget_show (GtkWidget *widget); | ^~~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:571:59: warning: 'GtkWidget* gtk_message_dialog_new(GtkWindow*, GtkDialogFlags, GtkMessageType, GtkButtonsType, const char*, ...)' is deprecated [-Wdeprecated-declarations] 571 | GtkWidget* message = gtk_message_dialog_new(window, | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ 572 | GTK_DIALOG_DESTROY_WITH_PARENT, // flags | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 573 | GTK_MESSAGE_ERROR, // type | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 574 | GTK_BUTTONS_CLOSE, // buttons | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 575 | "Nothing was chosen!" // message_format | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 576 | ); // G_GNUC_PRINTF (5, 6); | ~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ state.cpp:565:58: note: in expansion of macro 'G_CALLBACK' 565 | g_signal_connect(G_OBJECT(ok_button), "clicked", G_CALLBACK(+[](GtkButton* button, gpointer userdata){ | ^~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkmessagedialog.h:81:12: note: declared here 81 | GtkWidget* gtk_message_dialog_new (GtkWindow *parent, | ^~~~~~~~~~~~~~~~~~~~~~ state.cpp: In lambda function: state.cpp:615:55: warning: 'GtkWidget* gtk_message_dialog_new(GtkWindow*, GtkDialogFlags, GtkMessageType, GtkButtonsType, const char*, ...)' is deprecated [-Wdeprecated-declarations] 615 | auto* message = gtk_message_dialog_new( | ~~~~~~~~~~~~~~~~~~~~~~^ 616 | GTK_WINDOW(source_object), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 | GTK_DIALOG_DESTROY_WITH_PARENT, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 618 | GTK_MESSAGE_ERROR, | ~~~~~~~~~~~~~~~~~~ 619 | GTK_BUTTONS_CLOSE, | ~~~~~~~~~~~~~~~~~~ 620 | "Error: Molecule could not be loaded.\n%s", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 621 | e.what() | ~~~~~~~~ 622 | ); | ~ /usr/include/gtk-4.0/gtk/deprecated/gtkmessagedialog.h:81:12: note: declared here 81 | GtkWidget* gtk_message_dialog_new (GtkWindow *parent, | ^~~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas.cpp: In function 'void on_hover(GtkEventControllerMotion*, gdouble, gdouble, gpointer)': ligand_editor_canvas.cpp:262:73: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 262 | auto coords = target.get_on_screen_coords(atom.x, atom.y); | ^ ligand_editor_canvas/render.cpp: In member function 'std::pair<_graphene_point_t, _graphene_point_t> coot::ligand_editor_canvas::impl::MoleculeRenderContext::cropped_bond_coords(const graphene_point_t&, unsigned int, const graphene_point_t&, unsigned int)': ligand_editor_canvas/render.cpp:801:219: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 801 | std::pair MoleculeRenderContext::cropped_bond_coords(const graphene_point_t& first_atom, unsigned int first_atom_idx, const graphene_point_t& second_atom, unsigned int second_atom_idx) { | ^ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_straight_wedge(const coot::ligand_editor_canvas::CanvasMolecule::Bond&, bool)': ligand_editor_canvas/render.cpp:914:54: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 914 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ^ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_straight_dashed_bond(const coot::ligand_editor_canvas::CanvasMolecule::Bond&, bool)': ligand_editor_canvas/render.cpp:955:95: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 955 | auto [current,target_cropped] = cropped_bond_coords(origin, origin_idx, target, target_idx); | ^ ligand_editor_canvas/render.cpp:957:54: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 957 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ^ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_wavy_bond(const coot::ligand_editor_canvas::CanvasMolecule::Bond&)': ligand_editor_canvas/render.cpp:988:110: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 988 | auto [first,second] = cropped_bond_coords(first_atom,bond.first_atom_idx,second_atom,bond.second_atom_idx); | ^ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_side_bond_line(const coot::ligand_editor_canvas::CanvasMolecule::Bond&, bool, std::optional, std::optional)': ligand_editor_canvas/render.cpp:1112:54: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1112 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ^ ligand_editor_canvas/render.cpp:1160:5: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 1160 | ); | ^ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_centered_double_bond(const coot::ligand_editor_canvas::CanvasMolecule::Bond&)': ligand_editor_canvas/render.cpp:1216:54: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1216 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ^ ligand_editor_canvas/render.cpp:1230:110: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 1230 | auto [first,second] = cropped_bond_coords(first_atom,bond.first_atom_idx,second_atom,bond.second_atom_idx); | ^ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_straight_wedge(const coot::ligand_editor_canvas::CanvasMolecule::Bond&, bool)': ligand_editor_canvas/render.cpp:891:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 891 | void MoleculeRenderContext::draw_straight_wedge(const CanvasMolecule::Bond& bond, bool reversed) { | ^~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/render.cpp:891:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:891:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:912:63: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 912 | auto [origin_cropped,target_cropped] = cropped_bond_coords(origin, origin_idx, target, target_idx); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/render.cpp:914:53: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 914 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_straight_dashed_bond(const coot::ligand_editor_canvas::CanvasMolecule::Bond&, bool)': ligand_editor_canvas/render.cpp:934:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 934 | void MoleculeRenderContext::draw_straight_dashed_bond(const CanvasMolecule::Bond& bond, bool reversed) { | ^~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/render.cpp:934:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:934:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:934:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:955:56: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 955 | auto [current,target_cropped] = cropped_bond_coords(origin, origin_idx, target, target_idx); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/render.cpp:957:53: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 957 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_wavy_bond(const coot::ligand_editor_canvas::CanvasMolecule::Bond&)': ligand_editor_canvas/render.cpp:979:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 979 | void MoleculeRenderContext::draw_wavy_bond(const CanvasMolecule::Bond& bond) { | ^~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_side_bond_line(const coot::ligand_editor_canvas::CanvasMolecule::Bond&, bool, std::optional, std::optional)': ligand_editor_canvas/render.cpp:1111:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1111 | void MoleculeRenderContext::draw_side_bond_line(const CanvasMolecule::Bond& bond, bool addOrSub, std::optional first_shortening_proportion, std::optional second_shortening_proportion) { | ^~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/render.cpp:1111:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:1111:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:1111:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:1112:53: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1112 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ ligand_editor_canvas/render.cpp:1155:50: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 1155 | auto [first_c,second_c] = cropped_bond_coords( | ~~~~~~~~~~~~~~~~~~~^ 1156 | first_atom_centered, | ~~~~~~~~~~~~~~~~~~~~ 1157 | bond.first_atom_idx, | ~~~~~~~~~~~~~~~~~~~~ 1158 | second_atom_centered, | ~~~~~~~~~~~~~~~~~~~~~ 1159 | bond.second_atom_idx | ~~~~~~~~~~~~~~~~~~~~ 1160 | ); | ~ ligand_editor_canvas/render.cpp: In member function 'void coot::ligand_editor_canvas::impl::MoleculeRenderContext::draw_centered_double_bond(const coot::ligand_editor_canvas::CanvasMolecule::Bond&)': ligand_editor_canvas/render.cpp:1215:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1215 | void MoleculeRenderContext::draw_centered_double_bond(const CanvasMolecule::Bond& bond) { | ^~~~~~~~~~~~~~~~~~~~~ ligand_editor_canvas/render.cpp:1215:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:1215:6: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:1215:6: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 ligand_editor_canvas/render.cpp:1216:53: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1216 | auto [pv_x,pv_y] = bond.get_perpendicular_versor(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ ligand_editor_canvas/render.cpp:1230:46: note: parameter passing for argument of type 'std::pair<_graphene_point_t, _graphene_point_t>' when C++17 is enabled changed to match C++14 in GCC 10.1 1230 | auto [first,second] = cropped_bond_coords(first_atom,bond.first_atom_idx,second_atom,bond.second_atom_idx); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-layla.la -rpath /usr/lib/aarch64-linux-gnu layla_embedded.lo generators.lo notifier.lo signals.lo state.lo ui.lo utils.lo qed.lo ligand_editor_canvas/core.lo ligand_editor_canvas.lo ligand_editor_canvas/model.lo ligand_editor_canvas/tools.lo ligand_editor_canvas/render.lo python_utils.lo ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lvulkan -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lglib-2.0 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lcurl -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/layla_embedded.o .libs/generators.o .libs/notifier.o .libs/signals.o .libs/state.o .libs/ui.o .libs/utils.o .libs/qed.o ligand_editor_canvas/.libs/core.o .libs/ligand_editor_canvas.o ligand_editor_canvas/.libs/model.o ligand_editor_canvas/.libs/tools.o ligand_editor_canvas/.libs/render.o .libs/python_utils.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../geometry/.libs/libcoot-geometry.so ../lidia-core/.libs/libcoot-lidia-core.so ../utils/.libs/libcoot-utils.so -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lvulkan -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lcurl -lpthread -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-layla.so.0 -o .libs/libcoot-layla.so.0.0.0 /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libgtk-4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libharfbuzz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libgdk_pixbuf-2.0.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcairo-gobject.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcairo.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libvulkan.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libgraphene-1.0.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libgio-2.0.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libgobject-2.0.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libglib-2.0.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitAlignment.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 46 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot-layla.so.0" && ln -s "libcoot-layla.so.0.0.0" "libcoot-layla.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-layla.so" && ln -s "libcoot-layla.so.0.0.0" "libcoot-layla.so") libtool: link: ( cd ".libs" && rm -f "libcoot-layla.la" && ln -s "../libcoot-layla.la" "libcoot-layla.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/usr/share/coot"' -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o layla-bin main.o libcoot-layla.la ../utils/libcoot-utils.la -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lvulkan -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lglib-2.0 libtool: link: g++ -DPKGDATADIR=\"/usr/share/coot\" -DUSE_SQLITE3 -DUSE_LIBPNG=1 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z -Wl,relro -o .libs/layla-bin main.o ./.libs/libcoot-layla.so ../utils/.libs/libcoot-utils.so -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lvulkan -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/layla' Making all in validation-graphs make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/validation-graphs' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o residue-validation-information.lo residue-validation-information.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o validation-graph-widget.lo validation-graph-widget.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o validation-graphs.lo validation-graphs.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o validation-information.lo validation-information.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o sequence-view-widget.lo sequence-view-widget.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c validation-graph-widget.cc -fPIC -DPIC -o .libs/validation-graph-widget.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c residue-validation-information.cc -fPIC -DPIC -o .libs/residue-validation-information.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c validation-graphs.cc -fPIC -DPIC -o .libs/validation-graphs.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c sequence-view-widget.cc -fPIC -DPIC -o .libs/sequence-view-widget.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c validation-information.cc -fPIC -DPIC -o .libs/validation-information.o validation-graph-widget.cc: In function 'void coot_validation_graph_snapshot(GtkWidget*, GtkSnapshot*)': validation-graph-widget.cc:229:66: warning: 'GtkStyleContext* gtk_widget_get_style_context(GtkWidget*)' is deprecated [-Wdeprecated-declarations] 229 | GtkStyleContext* style_context = gtk_widget_get_style_context(widget); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from validation-graph-widget.hh:28, from validation-graph-widget.cc:26: /usr/include/gtk-4.0/gtk/gtkwidget.h:713:19: note: declared here 713 | GtkStyleContext * gtk_widget_get_style_context (GtkWidget *widget); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ validation-graph-widget.cc:230:32: warning: 'void gtk_style_context_get_color(GtkStyleContext*, GdkRGBA*)' is deprecated [-Wdeprecated-declarations] 230 | gtk_style_context_get_color(style_context,&attribute_color); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:268: /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:112:6: note: declared here 112 | void gtk_style_context_get_color (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -Wl,-z,relro -o libcoot-validation-graphs.la -rpath /usr/lib/aarch64-linux-gnu residue-validation-information.lo validation-graph-widget.lo validation-graphs.lo validation-information.lo sequence-view-widget.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../lidia-core/libcoot-lidia-core.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lmmdb2 -lsqlite3 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitPartialCharges -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lvulkan -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/15/crtbeginS.o .libs/residue-validation-information.o .libs/validation-graph-widget.o .libs/validation-graphs.o .libs/validation-information.o .libs/sequence-view-widget.o -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ideal/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/coot-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/lidia-core/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/cootaneer/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/db-main/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/ccp4mg-utils/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/geometry/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/mini-mol/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/analysis/.libs -Wl,-rpath -Wl,/build/reproducible-path/coot-1.1.18+dfsg/utils/.libs ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../lidia-core/.libs/libcoot-lidia-core.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../analysis/.libs/libcoot-analysis.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lsqlite3 -L/usr/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitGenericGroups -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitRDGeneral -lRDKitDataStructs -lboost_serialization -lboost_iostreams -lgtk-4 -lpangocairo-1.0 -lpango-1.0 -lharfbuzz -lgdk_pixbuf-2.0 -lcairo-gobject -lcairo -lvulkan -lgraphene-1.0 -lgio-2.0 -lgobject-2.0 -lglib-2.0 -lpthread -L/usr/lib/gcc/aarch64-linux-gnu/15 -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/15/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/15/../../.. -L/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/aarch64-linux-gnu/15/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/crtn.o -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-soname -Wl,libcoot-validation-graphs.so.0 -o .libs/libcoot-validation-graphs.so.0.0.0 ../coot-utils/.libs/libcoot-coord-utils.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-fortran.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-ccp4.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cif.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-minimol.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-mmdb.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-cns.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-phs.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-contrib.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libclipper-core.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libmmdb2.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitMolDraw2D.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceFieldHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDescriptors.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitForceField.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitSubstructMatch.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitOptimizer.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeomHelpers.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitDistGeometry.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/libRDKitChemReactions.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. warning: found a total of 57 dynamically-linked objects incompatible with GCS requirements. libtool: link: (cd ".libs" && rm -f "libcoot-validation-graphs.so.0" && ln -s "libcoot-validation-graphs.so.0.0.0" "libcoot-validation-graphs.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-validation-graphs.so" && ln -s "libcoot-validation-graphs.so.0.0.0" "libcoot-validation-graphs.so") libtool: link: ( cd ".libs" && rm -f "libcoot-validation-graphs.la" && ln -s "../libcoot-validation-graphs.la" "libcoot-validation-graphs.la" ) make[2]: Leaving directory '/build/reproducible-path/coot-1.1.18+dfsg/validation-graphs' Making all in src make[2]: Entering directory '/build/reproducible-path/coot-1.1.18+dfsg/src' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o init_coot_as_python_module.lo init_coot_as_python_module.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' 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-ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c boot-python.cc -fPIC -DPIC -o .libs/boot-python.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-build-morph.cc -fPIC -DPIC -o .libs/c-interface-build-morph.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-analysis.cc -fPIC -DPIC -o .libs/c-interface-analysis.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c scm-boot-guile.cc -fPIC -DPIC -o .libs/scm-boot-guile.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c git-revision-count.cc -fPIC -DPIC -o .libs/git-revision-count.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c atom-overlaps.cc -fPIC -DPIC -o .libs/atom-overlaps.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c init_coot_as_python_module.cc -fPIC -DPIC -o .libs/init_coot_as_python_module.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-build-side-chain.cc -fPIC -DPIC -o .libs/c-interface-build-side-chain.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-build-main-chain.cc -fPIC -DPIC -o .libs/c-interface-build-main-chain.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-build-symmetry.lo c-interface-build-symmetry.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-bonds.cc -fPIC -DPIC -o .libs/c-interface-bonds.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-build.cc -fPIC -DPIC -o .libs/c-interface-build.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-build-symmetry.cc -fPIC -DPIC -o .libs/c-interface-build-symmetry.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-build-gui.lo c-interface-build-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-build-gui.cc -fPIC -DPIC -o .libs/c-interface-build-gui.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-curlew.lo c-interface-curlew.cc In file included from boids.cc:111: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-curlew.cc -fPIC -DPIC -o .libs/c-interface-curlew.o In file included from json.hpp:39, from c-interface-curlew.cc:53: /usr/include/c++/15/ciso646:49:6: warning: #warning " is not a standard header since C++20, use to detect implementation-specific macros" [-Wcpp] 49 | # warning " is not a standard header since C++20, use to detect implementation-specific macros" | ^~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-database.lo c-interface-database.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-database.cc -fPIC -DPIC -o .libs/c-interface-database.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-gui.lo c-interface-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-gui.cc -fPIC -DPIC -o .libs/c-interface-gui.o In file included from c-interface-build-morph.cc:55: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from c-interface-build.cc:57: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-build-side-chain.cc:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from c-interface-analysis.cc:34: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-build-morph.cc:58: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-build.cc:59: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-build-main-chain.cc:54: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-bonds.cc:42: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-build-gui.cc:54: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-build-symmetry.cc:56: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-bonds.cc:48: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-build-side-chain.cc:66: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-build-main-chain.cc:63: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from atom-overlaps.cc:40: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from init_coot_as_python_module.cc:37: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-build-symmetry.cc:65: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:40, from c-interface-curlew.cc:66: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-build-gui.cc:59: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../ideal/simple-restraint.hh:174, from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-build-morph.cc:65: ../ideal/zo-rama.hh: In member function 'std::pair zo::rama_coeffs::df(const zo::realtype&, const zo::realtype&) const': ../ideal/zo-rama.hh:85:98: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 85 | std::pair df(const realtype &rama_phi, const realtype &rama_psi) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-gui.cc:72: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cc-interface.hh:42, from c-interface-bonds.cc:52: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-analysis.cc:36: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../ideal/simple-restraint.hh:174, from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-build.cc:70: ../ideal/zo-rama.hh: In member function 'std::pair zo::rama_coeffs::df(const zo::realtype&, const zo::realtype&) const': ../ideal/zo-rama.hh:85:98: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 85 | std::pair df(const realtype &rama_phi, const realtype &rama_psi) const { | ^ In file included from cc-interface.hh:42, from atom-overlaps.cc:42: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from ../ligand/helix-placement.hh:24, from c-interface-build-morph.cc:68: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from ../ligand/helix-placement.hh:24, from c-interface-build-symmetry.cc:71: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from ../ligand/helix-placement.hh:24, from c-interface-build-main-chain.cc:69: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from ../ligand/helix-placement.hh:24, from c-interface-build-side-chain.cc:72: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-build-symmetry.cc: In function 'void save_symmetry_coords_based_on_position()': c-interface-build-symmetry.cc:213:40: warning: 'GtkWidget* gtk_file_chooser_dialog_new(const char*, GtkWindow*, GtkFileChooserAction, const char*, ...)' is deprecated [-Wdeprecated-declarations] 213 | gtk_file_chooser_dialog_new("Save Symm Coordinates", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 214 | parent_window, | ~~~~~~~~~~~~~~ 215 | action, | ~~~~~~~ 216 | ("_Cancel"), | ~~~~~~~~~~~~ 217 | GTK_RESPONSE_CANCEL, | ~~~~~~~~~~~~~~~~~~~~ 218 | ("_Save"), | ~~~~~~~~~~ 219 | GTK_RESPONSE_YES, | ~~~~~~~~~~~~~~~~~ 220 | NULL); | ~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:131, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooserdialog.h:39:12: note: declared here 39 | GtkWidget *gtk_file_chooser_dialog_new (const char *title, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from ../ligand/helix-placement.hh:24, from c-interface-build-gui.cc:65: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-build-gui.cc: In function 'void fill_move_molecule_here_frame(GtkWidget*)': c-interface-build-gui.cc:246:25: warning: 'void gtk_cell_layout_clear(GtkCellLayout*)' is deprecated [-Wdeprecated-declarations] 246 | gtk_cell_layout_clear(GTK_CELL_LAYOUT(combobox)); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:68, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/deprecated/gtkcelllayout.h:125:7: note: declared here 125 | void gtk_cell_layout_clear (GtkCellLayout *cell_layout); | ^~~~~~~~~~~~~~~~~~~~~ c-interface-build-gui.cc: In function 'bool renumber_residues_from_widget(GtkWidget*)': c-interface-build-gui.cc:418:64: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 418 | std::string chain_id = gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(chain_id_combobox)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:95: /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-curlew.cc:70: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ c-interface-build-gui.cc: In function 'void mutate_sequence_chain_combobox_changed(GtkWidget*, gpointer)': c-interface-build-gui.cc:913:50: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 913 | char *atc = gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(combobox)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-build-gui.cc: In function 'GtkWidget* wrapped_create_fast_ss_search_dialog()': c-interface-build-gui.cc:1616:27: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 1616 | gtk_combo_box_set_active(GTK_COMBO_BOX(helix_temp_combobox), 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:94: /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-build-gui.cc:1617:27: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 1617 | gtk_combo_box_set_active(GTK_COMBO_BOX(helix_noaa_combobox), 1); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-build-gui.cc:1618:27: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 1618 | gtk_combo_box_set_active(GTK_COMBO_BOX(strand_temp_combobox), 1); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-build-gui.cc:1619:27: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 1619 | gtk_combo_box_set_active(GTK_COMBO_BOX(strand_noaa_combobox), 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-build-gui.cc:1620:27: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 1620 | gtk_combo_box_set_active(GTK_COMBO_BOX(radius_combobox),1); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../coot-utils/coot-map-utils.hh:33, from ../ligand/helix-placement.hh:24, from c-interface-build.cc:75: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cc-interface.hh:42, from c-interface-gui.cc:78: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-gui.cc: In function 'void open_cif_dictionary_file_selector_dialog()': c-interface-gui.cc:174:65: warning: 'GtkWidget* gtk_dialog_get_content_area(GtkDialog*)' is deprecated [-Wdeprecated-declarations] 174 | GtkWidget *aa_hbutton_box = gtk_dialog_get_content_area(GTK_DIALOG(filechooser)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkappchooserdialog.h:31, from /usr/include/gtk-4.0/gtk/gtk.h:43, from gtk-utils.hh:26, from curl-utils.hh:36, from c-interface-gui.cc:70: /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:176:13: note: declared here 176 | GtkWidget * gtk_dialog_get_content_area (GtkDialog *dialog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void fill_remarks_browswer_chooser(GtkWidget*)': c-interface-gui.cc:285:28: warning: 'void gtk_cell_layout_clear(GtkCellLayout*)' is deprecated [-Wdeprecated-declarations] 285 | gtk_cell_layout_clear(GTK_CELL_LAYOUT(combobox)); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:68: /usr/include/gtk-4.0/gtk/deprecated/gtkcelllayout.h:125:7: note: declared here 125 | void gtk_cell_layout_clear (GtkCellLayout *cell_layout); | ^~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void add_coot_references_button(GtkWidget*)': c-interface-gui.cc:841:47: warning: 'GtkWidget* gtk_dialog_get_header_bar(GtkDialog*)' is deprecated [-Wdeprecated-declarations] 841 | GtkWidget *hbox = gtk_dialog_get_header_bar(GTK_DIALOG(widget)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:178:13: note: declared here 178 | GtkWidget * gtk_dialog_get_header_bar (GtkDialog *dialog); | ^~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void add_recentre_on_read_pdb_combobox(GtkWidget*)': c-interface-gui.cc:1222:31: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 1222 | gtk_combo_box_set_active(GTK_COMBO_BOX(combobox), 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:94: /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:1224:31: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 1224 | gtk_combo_box_set_active(GTK_COMBO_BOX(combobox), 1); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void store_window_size(int, GtkWidget*)': c-interface-gui.cc:1345:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 1345 | gtk_widget_get_allocation(widget, &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33: /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void add_filechooser_filter_button(GtkWidget*, short int)': c-interface-gui.cc:1681:30: warning: 'void gtk_file_chooser_add_filter(GtkFileChooser*, GtkFileFilter*)' is deprecated [-Wdeprecated-declarations] 1681 | gtk_file_chooser_add_filter(GTK_FILE_CHOOSER (filechooser), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1682 | GTK_FILE_FILTER (filterall)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:130: /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooser.h:140:22: note: declared here 140 | void gtk_file_chooser_add_filter (GtkFileChooser *chooser, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:1683:30: warning: 'void gtk_file_chooser_add_filter(GtkFileChooser*, GtkFileFilter*)' is deprecated [-Wdeprecated-declarations] 1683 | gtk_file_chooser_add_filter(GTK_FILE_CHOOSER (filechooser), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1684 | GTK_FILE_FILTER (filterselect)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooser.h:140:22: note: declared here 140 | void gtk_file_chooser_add_filter (GtkFileChooser *chooser, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:1688:32: warning: 'void gtk_file_chooser_set_filter(GtkFileChooser*, GtkFileFilter*)' is deprecated [-Wdeprecated-declarations] 1688 | gtk_file_chooser_set_filter(GTK_FILE_CHOOSER (filechooser), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1689 | GTK_FILE_FILTER (filterselect)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooser.h:151:22: note: declared here 151 | void gtk_file_chooser_set_filter (GtkFileChooser *chooser, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:1692:32: warning: 'void gtk_file_chooser_set_filter(GtkFileChooser*, GtkFileFilter*)' is deprecated [-Wdeprecated-declarations] 1692 | gtk_file_chooser_set_filter(GTK_FILE_CHOOSER (filechooser), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1693 | GTK_FILE_FILTER (filterall)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooser.h:151:22: note: declared here 151 | void gtk_file_chooser_set_filter (GtkFileChooser *chooser, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void add_filechooser_extra_filter_button(GtkWidget*, const gchar*, const gchar*)': c-interface-gui.cc:1708:31: warning: 'void gtk_file_chooser_add_filter(GtkFileChooser*, GtkFileFilter*)' is deprecated [-Wdeprecated-declarations] 1708 | gtk_file_chooser_add_filter (GTK_FILE_CHOOSER (fileselection), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1709 | GTK_FILE_FILTER (filter)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooser.h:140:22: note: declared here 140 | void gtk_file_chooser_add_filter (GtkFileChooser *chooser, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void set_refine_params_comboboxes()': c-interface-gui.cc:2274:37: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 2274 | if (cb1) gtk_combo_box_set_active(GTK_COMBO_BOX(cb1), g.refine_params_dialog_geman_mcclure_alpha_combobox_position); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:2275:37: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 2275 | if (cb2) gtk_combo_box_set_active(GTK_COMBO_BOX(cb2), g.refine_params_dialog_rama_restraints_weight_combobox_position); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:2276:37: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 2276 | if (cb3) gtk_combo_box_set_active(GTK_COMBO_BOX(cb3), g.refine_params_dialog_lennard_jones_epsilon_combobox_position); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:2277:37: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 2277 | if (cb4) gtk_combo_box_set_active(GTK_COMBO_BOX(cb4), g.refine_params_dialog_torsions_weight_combox_position); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void fill_chiral_volume_molecule_combobox(GtkWidget*)': c-interface-gui.cc:2339:50: warning: 'GtkWidget* gtk_combo_box_new()' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 2339 | GtkWidget *combobox_new = gtk_combo_box_new(); | ~~~~~~~~~~~~~~~~~^~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:74:15: note: declared here 74 | GtkWidget *gtk_combo_box_new (void); | ^~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void pepflips_by_difference_map_dialog()': c-interface-gui.cc:2364:25: warning: 'void gtk_cell_layout_clear(GtkCellLayout*)' is deprecated [-Wdeprecated-declarations] 2364 | gtk_cell_layout_clear(GTK_CELL_LAYOUT(model_combobox)); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcelllayout.h:125:7: note: declared here 125 | void gtk_cell_layout_clear (GtkCellLayout *cell_layout); | ^~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:2365:25: warning: 'void gtk_cell_layout_clear(GtkCellLayout*)' is deprecated [-Wdeprecated-declarations] 2365 | gtk_cell_layout_clear(GTK_CELL_LAYOUT(map_combobox)); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcelllayout.h:125:7: note: declared here 125 | void gtk_cell_layout_clear (GtkCellLayout *cell_layout); | ^~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In lambda function: c-interface-gui.cc:3496:40: warning: 'void gtk_color_chooser_get_rgba(GtkColorChooser*, GdkRGBA*)' is deprecated [-Wdeprecated-declarations] 3496 | gtk_color_chooser_get_rgba(GTK_COLOR_CHOOSER(self), &rgba); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:83: /usr/include/gtk-4.0/gtk/deprecated/gtkcolorchooser.h:66:10: note: declared here 66 | void gtk_color_chooser_get_rgba (GtkColorChooser *chooser, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'GtkWidget* wrapped_create_show_symmetry_window()': c-interface-gui.cc:3506:68: warning: 'GtkWidget* gtk_color_button_new_with_rgba(const GdkRGBA*)' is deprecated [-Wdeprecated-declarations] 3506 | GtkWidget *colour_button = gtk_color_button_new_with_rgba(&rgba); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:82: /usr/include/gtk-4.0/gtk/deprecated/gtkcolorbutton.h:53:14: note: declared here 53 | GtkWidget * gtk_color_button_new_with_rgba (const GdkRGBA *rgba); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void save_coordinates_using_widget(GtkWidget*)': c-interface-gui.cc:3887:46: warning: 'GFile* gtk_file_chooser_get_file(GtkFileChooser*)' is deprecated [-Wdeprecated-declarations] 3887 | GFile *file = gtk_file_chooser_get_file(GTK_FILE_CHOOSER(dialog)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooser.h:123:22: note: declared here 123 | GFile * gtk_file_chooser_get_file (GtkFileChooser *chooser); | ^~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'void save_symmetry_coords_from_filechooser(GtkWidget*)': c-interface-gui.cc:3918:43: warning: 'GFile* gtk_file_chooser_get_file(GtkFileChooser*)' is deprecated [-Wdeprecated-declarations] 3918 | GFile *file = gtk_file_chooser_get_file(GTK_FILE_CHOOSER(filechooser)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkfilechooser.h:123:22: note: declared here 123 | GFile * gtk_file_chooser_get_file (GtkFileChooser *chooser); | ^~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc: In function 'GtkWidget* wrapped_create_residue_editor_select_monomer_type_dialog()': c-interface-gui.cc:4569:36: warning: 'void gtk_combo_box_text_remove_all(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 4569 | gtk_combo_box_text_remove_all(GTK_COMBO_BOX_TEXT(combo_box)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:95: /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:55:15: note: declared here 55 | void gtk_combo_box_text_remove_all (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:4578:38: warning: 'void gtk_combo_box_text_append_text(GtkComboBoxText*, const char*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 4578 | gtk_combo_box_text_append_text (GTK_COMBO_BOX_TEXT(combo_box), s.c_str()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:42:15: note: declared here 42 | void gtk_combo_box_text_append_text (GtkComboBoxText *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-gui.cc:4579:31: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 4579 | gtk_combo_box_set_active(GTK_COMBO_BOX(combo_box), i); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-gtk2.lo c-interface-gtk2.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-info.lo c-interface-info.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-gtk2.cc -fPIC -DPIC -o .libs/c-interface-gtk2.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" 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c-interface-kk.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo 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-I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-kk.cc -fPIC -DPIC -o .libs/c-interface-kk.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON 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-DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-ligands-gui.lo c-interface-ligands-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-image.cc -fPIC -DPIC -o .libs/c-interface-image.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-ligands-gui.cc -fPIC -DPIC -o .libs/c-interface-ligands-gui.o In file included from c-interface-gtk2.cc:54: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-info.cc:65: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-ligands.lo c-interface-ligands.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-ligands.cc -fPIC -DPIC -o .libs/c-interface-ligands.o In file included from ../coot-utils/coot-map-utils.hh:33, from c-interface-info.cc:68: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-maps.lo c-interface-maps.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-maps.cc -fPIC -DPIC -o .libs/c-interface-maps.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-mmdb.lo c-interface-mmdb.cc In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-ligands-gui.cc:51: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-mmdb.cc -fPIC -DPIC -o .libs/c-interface-mmdb.o In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-kk.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from c-interface-image.cc:38: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from c-interface-image.cc:44: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../coot-utils/coot-map-utils.hh:33, from c-interface-maps.cc:38: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-ligands.cc:47: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-info.cc:73: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-ligands-gui.cc:54: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-gtk2.cc:59: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-mogul.lo c-interface-mogul.cc In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-mogul.cc -fPIC -DPIC -o .libs/c-interface-mogul.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-ligands.cc:55: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-image.cc:47: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-mmdb.cc:40: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-maps.cc:52: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ c-interface-image.cc: In function 'GtkWidget* get_image_widget_for_comp_id(const std::string&, int)': c-interface-image.cc:132:45: warning: 'GtkWidget* gtk_image_new_from_pixbuf(GdkPixbuf*)' is deprecated: Use 'gtk_image_new_from_paintable' instead [-Wdeprecated-declarations] 132 | r = gtk_image_new_from_pixbuf(pixbuf); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkentry.h:40, from /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:27, from /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:26, from /usr/include/gtk-4.0/gtk/gtk.h:94, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/gtkimage.h:78:12: note: declared here 78 | GtkWidget* gtk_image_new_from_pixbuf (GdkPixbuf *pixbuf); | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ c-interface-gtk2.cc: In function 'gboolean fileselection_sort_button_foreach_func(GtkTreeModel*, GtkTreePath*, GtkTreeIter*, gpointer)': c-interface-gtk2.cc:101:23: warning: 'void gtk_tree_model_get(GtkTreeModel*, GtkTreeIter*, ...)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 101 | gtk_tree_model_get (model, iter, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ 102 | 0, &file_name, | ~~~~~~~~~~~~~~ 103 | -1); | ~~~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkcellarea.h:30, from /usr/include/gtk-4.0/gtk/gtk.h:64, from c-interface.h:85, from c-interface-gtk2.cc:56: /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:370:19: note: declared here 370 | void gtk_tree_model_get (GtkTreeModel *tree_model, | ^~~~~~~~~~~~~~~~~~ c-interface-gtk2.cc:104:43: warning: 'char* gtk_tree_path_to_string(GtkTreePath*)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 104 | tree_path_str = gtk_tree_path_to_string(path); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:210:14: note: declared here 210 | char *gtk_tree_path_to_string (GtkTreePath *path); | ^~~~~~~~~~~~~~~~~~~~~~~ c-interface-gtk2.cc: In function 'gboolean fileselection_filter_button_foreach_func(GtkTreeModel*, GtkTreePath*, GtkTreeIter*, gpointer)': c-interface-gtk2.cc:143:23: warning: 'void gtk_tree_model_get(GtkTreeModel*, GtkTreeIter*, ...)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 143 | gtk_tree_model_get (model, iter, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ 144 | 0, &file_name, | ~~~~~~~~~~~~~~ 145 | -1); | ~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:370:19: note: declared here 370 | void gtk_tree_model_get (GtkTreeModel *tree_model, | ^~~~~~~~~~~~~~~~~~ c-interface-gtk2.cc:151:34: warning: 'gboolean gtk_tree_model_get_iter(GtkTreeModel*, GtkTreeIter*, GtkTreePath*)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 151 | if (gtk_tree_model_get_iter(model, iter, path)) { | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:317:19: note: declared here 317 | gboolean gtk_tree_model_get_iter (GtkTreeModel *tree_model, | ^~~~~~~~~~~~~~~~~~~~~~~ c-interface-gtk2.cc:154:31: warning: 'gboolean gtk_list_store_remove(GtkListStore*, GtkTreeIter*)' is deprecated: Use 'GListStore' instead [-Wdeprecated-declarations] 154 | gtk_list_store_remove(GTK_LIST_STORE(model), iter); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkentrycompletion.h:26, from /usr/include/gtk-4.0/gtk/gtkentry.h:39, from /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:27, from /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:26, from /usr/include/gtk-4.0/gtk/gtk.h:94: /usr/include/gtk-4.0/gtk/deprecated/gtkliststore.h:95:15: note: declared here 95 | gboolean gtk_list_store_remove (GtkListStore *list_store, | ^~~~~~~~~~~~~~~~~~~~~ In file included from c-interface-mogul.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from c-interface-maps.cc:60: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ In file included from cc-interface.hh:42, from c-interface-ligands-gui.cc:57: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-mogul-scripting.lo c-interface-mogul-scripting.cc In file included from cc-interface.hh:42, from c-interface-ligands.cc:59: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-mogul-scripting.cc -fPIC -DPIC -o .libs/c-interface-mogul-scripting.o In file included from c-interface-mogul-scripting.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-mutate.lo c-interface-mutate.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-mutate.cc -fPIC -DPIC -o .libs/c-interface-mutate.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-ncs.lo c-interface-ncs.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-ncs.cc -fPIC -DPIC -o .libs/c-interface-ncs.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-network.lo c-interface-network.cc c-interface-info.cc: In function 'PyObject* get_pointer_position_frac_py()': c-interface-info.cc:2645:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2645 | std::pair xy = g.get_pointer_position_frac(); | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-network.cc -fPIC -DPIC -o .libs/c-interface-network.o In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-mogul.cc:33: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-ncs.cc:49: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ c-interface-mogul.cc: In function 'GtkCellRenderer* coot::mogul_results_add_cell_renderer(GtkTreeView*, GtkTreeStore*, const std::string&, int, int)': c-interface-mogul.cc:218:63: warning: 'GtkCellRenderer* gtk_cell_renderer_text_new()' is deprecated [-Wdeprecated-declarations] 218 | GtkCellRenderer *cell_renderer = gtk_cell_renderer_text_new(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkcellrendereraccel.h:24, from /usr/include/gtk-4.0/gtk/gtk.h:70, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/deprecated/gtkcellrenderertext.h:62:18: note: declared here 62 | GtkCellRenderer *gtk_cell_renderer_text_new (void); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:219:56: warning: 'GtkTreeViewColumn* gtk_tree_view_column_new()' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 219 | GtkTreeViewColumn *column = gtk_tree_view_column_new(); | ~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:26, from /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:26, from /usr/include/gtk-4.0/gtk/gtk.h:94: /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:87:25: note: declared here 87 | GtkTreeViewColumn *gtk_tree_view_column_new (void); | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:220:34: warning: 'void gtk_tree_view_column_set_title(GtkTreeViewColumn*, const char*)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 220 | gtk_tree_view_column_set_title(column, column_title.c_str()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:169:25: note: declared here 169 | void gtk_tree_view_column_set_title (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:221:31: warning: 'int gtk_tree_view_append_column(GtkTreeView*, GtkTreeViewColumn*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 221 | gtk_tree_view_append_column(tree_view, column); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:236:24: note: declared here 236 | int gtk_tree_view_append_column (GtkTreeView *tree_view, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:222:35: warning: 'void gtk_tree_view_column_pack_start(GtkTreeViewColumn*, GtkCellRenderer*, gboolean)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 222 | gtk_tree_view_column_pack_start(column, cell_renderer, TRUE); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:95:25: note: declared here 95 | void gtk_tree_view_column_pack_start (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:223:38: warning: 'void gtk_tree_view_column_add_attribute(GtkTreeViewColumn*, GtkCellRenderer*, const char*, int)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 223 | gtk_tree_view_column_add_attribute(column, cell_renderer, "text", pos); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:105:25: note: declared here 105 | void gtk_tree_view_column_add_attribute (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:225:43: warning: 'void gtk_tree_view_column_set_sort_column_id(GtkTreeViewColumn*, int)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 225 | gtk_tree_view_column_set_sort_column_id(column, pos); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:205:25: note: declared here 205 | void gtk_tree_view_column_set_sort_column_id (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc: In function 'void coot::fill_mogul_bonds_tab(GtkTreeView*, GtkWidget*, const mogul&, mmdb::Residue*)': c-interface-mogul.cc:289:55: warning: 'GtkTreeStore* gtk_tree_store_new(int, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 289 | GtkTreeStore *tree_store_bonds = gtk_tree_store_new(8, G_TYPE_STRING, G_TYPE_STRING, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 290 | G_TYPE_INT, | ~~~~~~~~~~~ 291 | G_TYPE_STRING, G_TYPE_STRING, G_TYPE_STRING, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 292 | G_TYPE_STRING, G_TYPE_FLOAT); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:293: /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:63:15: note: declared here 63 | GtkTreeStore *gtk_tree_store_new (int n_columns, | ^~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:295:27: warning: 'void gtk_tree_view_set_model(GtkTreeView*, GtkTreeModel*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 295 | gtk_tree_view_set_model(tv_bonds, GTK_TREE_MODEL(tree_store_bonds)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:211:24: note: declared here 211 | void gtk_tree_view_set_model (GtkTreeView *tree_view, | ^~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:320:37: warning: 'void gtk_tree_store_append(GtkTreeStore*, GtkTreeIter*, GtkTreeIter*)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 320 | gtk_tree_store_append(tree_store_bonds, &toplevel, NULL); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:131:15: note: declared here 131 | void gtk_tree_store_append (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:321:34: warning: 'void gtk_tree_store_set(GtkTreeStore*, GtkTreeIter*, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 321 | gtk_tree_store_set(tree_store_bonds, &toplevel, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 322 | 0, atom_name_1.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 323 | 1, atom_name_2.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 324 | 2, m[i].counts, | ~~~~~~~~~~~~~~~ 325 | 3, m_value.c_str(), | ~~~~~~~~~~~~~~~~~~~ 326 | 4, m_mean.c_str(), | ~~~~~~~~~~~~~~~~~~ 327 | 5, m_median.c_str(), | ~~~~~~~~~~~~~~~~~~~~ 328 | 6, m_std_dev.c_str(), | ~~~~~~~~~~~~~~~~~~~~~ 329 | 7, m[i].z, | ~~~~~~~~~~ 330 | -1); | ~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:81:15: note: declared here 81 | void gtk_tree_store_set (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:346:61: warning: 'GtkTreeSelection* gtk_tree_view_get_selection(GtkTreeView*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 346 | GtkTreeSelection *sel_bonds = gtk_tree_view_get_selection(GTK_TREE_VIEW(mogul_bonds_treeview)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:214:24: note: declared here 214 | GtkTreeSelection *gtk_tree_view_get_selection (GtkTreeView *tree_view); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc: In function 'void coot::on_mogul_bonds_selection_changed(GtkTreeSelection*, gpointer)': c-interface-mogul.cc:362:48: warning: 'gboolean gtk_tree_selection_get_selected(GtkTreeSelection*, GtkTreeModel**, GtkTreeIter*)' is deprecated [-Wdeprecated-declarations] 362 | gboolean r = gtk_tree_selection_get_selected(treeselection, &model, &iter); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:291: /usr/include/gtk-4.0/gtk/deprecated/gtktreeselection.h:100:18: note: declared here 100 | gboolean gtk_tree_selection_get_selected (GtkTreeSelection *selection, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:368:25: warning: 'void gtk_tree_model_get(GtkTreeModel*, GtkTreeIter*, ...)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 368 | gtk_tree_model_get(model, &iter, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ 369 | 0, &atom_id_1, | ~~~~~~~~~~~~~~ 370 | 1, &atom_id_2, | ~~~~~~~~~~~~~~ 371 | 2, &value, | ~~~~~~~~~~ 372 | 3, &mean, | ~~~~~~~~~ 373 | 4, &median, | ~~~~~~~~~~~ 374 | 5, &esd, | ~~~~~~~~ 375 | 6, &z, | ~~~~~~ 376 | -1); | ~~~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkcellarea.h:30, from /usr/include/gtk-4.0/gtk/gtk.h:64: /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:370:19: note: declared here 370 | void gtk_tree_model_get (GtkTreeModel *tree_model, | ^~~~~~~~~~~~~~~~~~ c-interface-mogul.cc: In function 'void coot::fill_mogul_angles_tab(GtkTreeView*, GtkWidget*, const mogul&, mmdb::Residue*)': c-interface-mogul.cc:427:56: warning: 'GtkTreeStore* gtk_tree_store_new(int, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 427 | GtkTreeStore *tree_store_angles = gtk_tree_store_new(9, | ~~~~~~~~~~~~~~~~~~^~~ 428 | G_TYPE_STRING, G_TYPE_STRING, G_TYPE_STRING, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 429 | G_TYPE_INT, | ~~~~~~~~~~~ 430 | G_TYPE_STRING, G_TYPE_STRING, G_TYPE_STRING, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 431 | G_TYPE_STRING, G_TYPE_FLOAT); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:63:15: note: declared here 63 | GtkTreeStore *gtk_tree_store_new (int n_columns, | ^~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:434:27: warning: 'void gtk_tree_view_set_model(GtkTreeView*, GtkTreeModel*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 434 | gtk_tree_view_set_model(tv_angles, GTK_TREE_MODEL(tree_store_angles)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:211:24: note: declared here 211 | void gtk_tree_view_set_model (GtkTreeView *tree_view, | ^~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:463:40: warning: 'void gtk_tree_store_append(GtkTreeStore*, GtkTreeIter*, GtkTreeIter*)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 463 | gtk_tree_store_append(tree_store_angles, &toplevel, NULL); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:131:15: note: declared here 131 | void gtk_tree_store_append (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:464:37: warning: 'void gtk_tree_store_set(GtkTreeStore*, GtkTreeIter*, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 464 | gtk_tree_store_set(tree_store_angles, &toplevel, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 465 | 0, atom_name_1.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 466 | 1, atom_name_2.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 467 | 2, atom_name_3.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 468 | 3, m[i].counts, | ~~~~~~~~~~~~~~~ 469 | 4, m_value.c_str(), | ~~~~~~~~~~~~~~~~~~~ 470 | 5, m_mean.c_str(), | ~~~~~~~~~~~~~~~~~~ 471 | 6, m_median.c_str(), | ~~~~~~~~~~~~~~~~~~~~ 472 | 7, m_std_dev.c_str(), | ~~~~~~~~~~~~~~~~~~~~~ 473 | 8, m[i].z, | ~~~~~~~~~~ 474 | -1); | ~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:81:15: note: declared here 81 | void gtk_tree_store_set (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:492:62: warning: 'GtkTreeSelection* gtk_tree_view_get_selection(GtkTreeView*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 492 | GtkTreeSelection *sel_angles = gtk_tree_view_get_selection(GTK_TREE_VIEW(mogul_angles_treeview)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:214:24: note: declared here 214 | GtkTreeSelection *gtk_tree_view_get_selection (GtkTreeView *tree_view); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc: In function 'void coot::on_mogul_angles_selection_changed(GtkTreeSelection*, gpointer)': c-interface-mogul.cc:507:48: warning: 'gboolean gtk_tree_selection_get_selected(GtkTreeSelection*, GtkTreeModel**, GtkTreeIter*)' is deprecated [-Wdeprecated-declarations] 507 | gboolean r = gtk_tree_selection_get_selected(treeselection, &model, &iter); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeselection.h:100:18: note: declared here 100 | gboolean gtk_tree_selection_get_selected (GtkTreeSelection *selection, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:515:25: warning: 'void gtk_tree_model_get(GtkTreeModel*, GtkTreeIter*, ...)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 515 | gtk_tree_model_get(model, &iter, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ 516 | 0, &atom_id_1, | ~~~~~~~~~~~~~~ 517 | 1, &atom_id_2, | ~~~~~~~~~~~~~~ 518 | 2, &atom_id_3, | ~~~~~~~~~~~~~~ 519 | 3, &value, | ~~~~~~~~~~ 520 | 4, &mean, | ~~~~~~~~~ 521 | 5, &median, | ~~~~~~~~~~~ 522 | 6, &esd, | ~~~~~~~~ 523 | 7, &z, | ~~~~~~ 524 | -1); | ~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:370:19: note: declared here 370 | void gtk_tree_model_get (GtkTreeModel *tree_model, | ^~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-nucleotides.lo c-interface-nucleotides.cc c-interface-mogul.cc: In function 'void coot::fill_mogul_torsions_tab(GtkTreeView*, GtkWidget*, const mogul&, mmdb::Residue*)': c-interface-mogul.cc:591:58: warning: 'GtkTreeStore* gtk_tree_store_new(int, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 591 | GtkTreeStore *tree_store_torsions = gtk_tree_store_new(6, | ~~~~~~~~~~~~~~~~~~^~~ 592 | G_TYPE_STRING, G_TYPE_STRING, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 593 | G_TYPE_STRING, G_TYPE_STRING, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 594 | G_TYPE_FLOAT, G_TYPE_FLOAT); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:63:15: note: declared here 63 | GtkTreeStore *gtk_tree_store_new (int n_columns, | ^~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:597:27: warning: 'void gtk_tree_view_set_model(GtkTreeView*, GtkTreeModel*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 597 | gtk_tree_view_set_model(tv_torsions, GTK_TREE_MODEL(tree_store_torsions)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:211:24: note: declared here 211 | void gtk_tree_view_set_model (GtkTreeView *tree_view, | ^~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:622:31: warning: 'void gtk_tree_store_append(GtkTreeStore*, GtkTreeIter*, GtkTreeIter*)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 622 | gtk_tree_store_append(tree_store_torsions, &toplevel, NULL); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:131:15: note: declared here 131 | void gtk_tree_store_append (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:623:28: warning: 'void gtk_tree_store_set(GtkTreeStore*, GtkTreeIter*, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 623 | gtk_tree_store_set(tree_store_torsions, &toplevel, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 624 | 0, atom_name_1.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 625 | 1, atom_name_2.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 626 | 2, atom_name_3.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 627 | 3, atom_name_4.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~ 628 | 4, m[i].value, | ~~~~~~~~~~~~~~ 629 | 5, m[i].dmin, | ~~~~~~~~~~~~~ 630 | -1); | ~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:81:15: note: declared here 81 | void gtk_tree_store_set (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:641:62: warning: 'GtkTreeSelection* gtk_tree_view_get_selection(GtkTreeView*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 641 | GtkTreeSelection *sel_angles = gtk_tree_view_get_selection(GTK_TREE_VIEW(mogul_torsions_treeview)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:214:24: note: declared here 214 | GtkTreeSelection *gtk_tree_view_get_selection (GtkTreeView *tree_view); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc: In function 'void coot::on_mogul_torsions_selection_changed(GtkTreeSelection*, gpointer)': c-interface-mogul.cc:655:48: warning: 'gboolean gtk_tree_selection_get_selected(GtkTreeSelection*, GtkTreeModel**, GtkTreeIter*)' is deprecated [-Wdeprecated-declarations] 655 | gboolean r = gtk_tree_selection_get_selected(treeselection, &model, &iter); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeselection.h:100:18: note: declared here 100 | gboolean gtk_tree_selection_get_selected (GtkTreeSelection *selection, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-mogul.cc:663:25: warning: 'void gtk_tree_model_get(GtkTreeModel*, GtkTreeIter*, ...)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 663 | gtk_tree_model_get(model, &iter, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ 664 | 0, &atom_id_1, | ~~~~~~~~~~~~~~ 665 | 1, &atom_id_2, | ~~~~~~~~~~~~~~ 666 | 2, &atom_id_3, | ~~~~~~~~~~~~~~ 667 | 3, &atom_id_4, | ~~~~~~~~~~~~~~ 668 | 4, &value, | ~~~~~~~~~~ 669 | -1); | ~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:370:19: note: declared here 370 | void gtk_tree_model_get (GtkTreeModel *tree_model, | ^~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-nucleotides.cc -fPIC -DPIC -o .libs/c-interface-nucleotides.o In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-mutate.cc:49: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-pisa.lo c-interface-pisa.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-pisa.cc -fPIC -DPIC -o .libs/c-interface-pisa.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-pisa-gui.lo c-interface-pisa-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-pisa-gui.cc -fPIC -DPIC -o .libs/c-interface-pisa-gui.o In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-ncs.cc:52: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:40, from c-interface-network.cc:47: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-pisa.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:42, from c-interface-mutate.cc:58: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-pisa-gui.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-preferences.lo c-interface-preferences.cc In file included from cc-interface.hh:42, from c-interface-ncs.cc:56: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-nucleotides.cc:40: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-preferences.cc -fPIC -DPIC -o .libs/c-interface-preferences.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-python.lo c-interface-python.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-python.cc -fPIC -DPIC -o .libs/c-interface-python.o In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-network.cc:53: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from c-interface-python.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:42, from c-interface-pisa.cc:37: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-network.cc: In function 'PyObject* curl_progress_info_py(const char*)': c-interface-network.cc:544:13: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] 544 | info = CURLINFO_CONTENT_LENGTH_DOWNLOAD; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from graphics-info.h:138: /usr/include/aarch64-linux-gnu/curl/curl.h:2932:3: note: declared here 2932 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-network.cc:552:13: warning: 'CURLINFO_SIZE_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_SIZE_DOWNLOAD_T [-Wdeprecated-declarations] 552 | info = CURLINFO_SIZE_DOWNLOAD; | ^~~~~~~~~~~~~~~~~~~~~~ /usr/include/aarch64-linux-gnu/curl/curl.h:2915:3: note: declared here 2915 | CURLINFO_SIZE_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-refine.lo c-interface-refine.cc In file included from cc-interface.hh:42, from c-interface-pisa-gui.cc:35: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from cc-interface.hh:42, from c-interface-nucleotides.cc:60: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-pisa-gui.cc: In function 'void coot::pisa_interfaces_gui(const std::vector&)': c-interface-pisa-gui.cc:54:29: warning: 'GtkTreeStore* gtk_tree_store_new(int, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 54 | gtk_tree_store_new (12, G_TYPE_INT, G_TYPE_INT, G_TYPE_STRING, G_TYPE_STRING, G_TYPE_STRING, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | G_TYPE_FLOAT, G_TYPE_FLOAT, G_TYPE_FLOAT, G_TYPE_INT, G_TYPE_INT, G_TYPE_INT, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | G_TYPE_INT); | ~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:293, from c-interface-pisa-gui.cc:30: /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:63:15: note: declared here 63 | GtkTreeStore *gtk_tree_store_new (int n_columns, | ^~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:59:30: warning: 'void gtk_tree_view_set_model(GtkTreeView*, GtkTreeModel*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 59 | gtk_tree_view_set_model(tv_interfaces, GTK_TREE_MODEL(tree_store_interfaces)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:26, from /usr/include/gtk-4.0/gtk/gtk.h:94: /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:211:24: note: declared here 211 | void gtk_tree_view_set_model (GtkTreeView *tree_view, | ^~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:61:31: warning: 'void gtk_tree_store_append(GtkTreeStore*, GtkTreeIter*, GtkTreeIter*)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 61 | gtk_tree_store_append(tree_store_interfaces, &toplevel, NULL); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:131:15: note: declared here 131 | void gtk_tree_store_append (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:62:28: warning: 'void gtk_tree_store_set(GtkTreeStore*, GtkTreeIter*, ...)' is deprecated: Use 'GtkTreeListModel' instead [-Wdeprecated-declarations] 62 | gtk_tree_store_set(tree_store_interfaces, &toplevel, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 | 0, gui_info[i].imol_1, | ~~~~~~~~~~~~~~~~~~~~~~ 64 | 1, gui_info[i].imol_2, | ~~~~~~~~~~~~~~~~~~~~~~ 65 | 2, gui_info[i].chain_id_1.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | 3, gui_info[i].chain_id_2.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 | 4, gui_info[i].symop.c_str(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 68 | 5, gui_info[i].interface_area, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | 6, gui_info[i].interface_solv_en, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | 7, gui_info[i].interface_pvalue, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 | 8, gui_info[i].n_h_bonds, | ~~~~~~~~~~~~~~~~~~~~~~~~~ 72 | 9, gui_info[i].n_salt_bridges, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 | 10, gui_info[i].n_ss_bonds, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 74 | 11, gui_info[i].n_cov_bonds, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 | -1); | ~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreestore.h:81:15: note: declared here 81 | void gtk_tree_store_set (GtkTreeStore *tree_store, | ^~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:90:58: warning: 'GtkTreeSelection* gtk_tree_view_get_selection(GtkTreeView*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 90 | GtkTreeSelection *sel = gtk_tree_view_get_selection(GTK_TREE_VIEW(treeview)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:214:24: note: declared here 214 | GtkTreeSelection *gtk_tree_view_get_selection (GtkTreeView *tree_view); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc: In function 'void coot::add_pisa_interfaces_cell_renderer(GtkTreeView*, const std::string&, int)': c-interface-pisa-gui.cc:108:63: warning: 'GtkCellRenderer* gtk_cell_renderer_text_new()' is deprecated [-Wdeprecated-declarations] 108 | GtkCellRenderer *cell_renderer = gtk_cell_renderer_text_new(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkcellrendereraccel.h:24, from /usr/include/gtk-4.0/gtk/gtk.h:70: /usr/include/gtk-4.0/gtk/deprecated/gtkcellrenderertext.h:62:18: note: declared here 62 | GtkCellRenderer *gtk_cell_renderer_text_new (void); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:109:56: warning: 'GtkTreeViewColumn* gtk_tree_view_column_new()' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 109 | GtkTreeViewColumn *column = gtk_tree_view_column_new(); | ~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:26: /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:87:25: note: declared here 87 | GtkTreeViewColumn *gtk_tree_view_column_new (void); | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:110:34: warning: 'void gtk_tree_view_column_set_title(GtkTreeViewColumn*, const char*)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 110 | gtk_tree_view_column_set_title(column, column_title.c_str()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:169:25: note: declared here 169 | void gtk_tree_view_column_set_title (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:111:31: warning: 'int gtk_tree_view_append_column(GtkTreeView*, GtkTreeViewColumn*)' is deprecated: Use 'GtkListView' instead [-Wdeprecated-declarations] 111 | gtk_tree_view_append_column(tree_view, column); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:236:24: note: declared here 236 | int gtk_tree_view_append_column (GtkTreeView *tree_view, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-refine.cc -fPIC -DPIC -o .libs/c-interface-refine.o c-interface-pisa-gui.cc:112:35: warning: 'void gtk_tree_view_column_pack_start(GtkTreeViewColumn*, GtkCellRenderer*, gboolean)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 112 | gtk_tree_view_column_pack_start(column, cell_renderer, TRUE); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:95:25: note: declared here 95 | void gtk_tree_view_column_pack_start (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:113:38: warning: 'void gtk_tree_view_column_add_attribute(GtkTreeViewColumn*, GtkCellRenderer*, const char*, int)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 113 | gtk_tree_view_column_add_attribute(column, cell_renderer, "text", pos); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:105:25: note: declared here 105 | void gtk_tree_view_column_add_attribute (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:115:43: warning: 'void gtk_tree_view_column_set_sort_column_id(GtkTreeViewColumn*, int)' is deprecated: Use 'GtkColumnView and GtkColumnViewColumn' instead [-Wdeprecated-declarations] 115 | gtk_tree_view_column_set_sort_column_id(column, pos); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtktreeviewcolumn.h:205:25: note: declared here 205 | void gtk_tree_view_column_set_sort_column_id (GtkTreeViewColumn *tree_column, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc: In function 'void coot::on_pisa_interfaces_seletion_changed(GtkTreeSelection*, gpointer)': c-interface-pisa-gui.cc:136:48: warning: 'gboolean gtk_tree_selection_get_selected(GtkTreeSelection*, GtkTreeModel**, GtkTreeIter*)' is deprecated [-Wdeprecated-declarations] 136 | gboolean r = gtk_tree_selection_get_selected(treeselection, &model, &iter); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:291: /usr/include/gtk-4.0/gtk/deprecated/gtktreeselection.h:100:18: note: declared here 100 | gboolean gtk_tree_selection_get_selected (GtkTreeSelection *selection, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-pisa-gui.cc:143:26: warning: 'void gtk_tree_model_get(GtkTreeModel*, GtkTreeIter*, ...)' is deprecated: Use 'GListModel' instead [-Wdeprecated-declarations] 143 | gtk_tree_model_get (model, &iter, | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ 144 | 0, &imol_1, | ~~~~~~~~~~~ 145 | 1, &imol_2, | ~~~~~~~~~~~ 146 | 2, &chain_id_1, | ~~~~~~~~~~~~~~~ 147 | 3, &chain_id_2, | ~~~~~~~~~~~~~~~ 148 | -1); | ~~~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkcellarea.h:30, from /usr/include/gtk-4.0/gtk/gtk.h:64: /usr/include/gtk-4.0/gtk/deprecated/gtktreemodel.h:370:19: note: declared here 370 | void gtk_tree_model_get (GtkTreeModel *tree_model, | ^~~~~~~~~~~~~~~~~~ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-preferences.cc:64: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ c-interface-ncs.cc: In function 'std::vector make_ncs_maps(int, int)': c-interface-ncs.cc:955:115: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 955 | graphics_info_t::molecules[imol_model].chain_centre_and_radius(ncs_ghosts[ighst].target_chain_id); | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-residues.lo c-interface-residues.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-residues.cc -fPIC -DPIC -o .libs/c-interface-residues.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-refmac.lo c-interface-refmac.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-refmac.cc -fPIC -DPIC -o .libs/c-interface-refmac.o In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-python.cc:40: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from cc-interface.hh:42, from c-interface-preferences.cc:70: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-preferences.cc: In lambda function: c-interface-preferences.cc:472:50: warning: 'void gtk_color_chooser_get_rgba(GtkColorChooser*, GdkRGBA*)' is deprecated [-Wdeprecated-declarations] 472 | gtk_color_chooser_get_rgba(GTK_COLOR_CHOOSER(self), &rgba); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:83, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/deprecated/gtkcolorchooser.h:66:10: note: declared here 66 | void gtk_color_chooser_get_rgba (GtkColorChooser *chooser, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-preferences.cc: In function 'void update_preference_gui()': c-interface-preferences.cc:483:78: warning: 'GtkWidget* gtk_color_button_new_with_rgba(const GdkRGBA*)' is deprecated [-Wdeprecated-declarations] 483 | GtkWidget *colour_button = gtk_color_button_new_with_rgba(&bg_colour); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:82: /usr/include/gtk-4.0/gtk/deprecated/gtkcolorbutton.h:53:14: note: declared here 53 | GtkWidget * gtk_color_button_new_with_rgba (const GdkRGBA *rgba); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../mini-mol/mini-mol.hh:29, from ../coot-utils/coot-coord-extras.hh:33, from ../coot-utils/glyco-tree.hh:32, from c-interface-residues.cc:37: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o simple-refmac.lo simple-refmac.cc In file included from cc-interface.hh:40, from c-interface-refmac.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c simple-refmac.cc -fPIC -DPIC -o .libs/simple-refmac.o In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-refine.cc:41: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-scm.lo c-interface-scm.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-scm.cc -fPIC -DPIC -o .libs/c-interface-scm.o In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-residues.cc:40: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-refmac.cc:33: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-sequence.lo c-interface-sequence.cc In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-sequence.cc -fPIC -DPIC -o .libs/c-interface-sequence.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-sfs.lo c-interface-sfs.cc In file included from c-interface-scm.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-sfs.cc -fPIC -DPIC -o .libs/c-interface-sfs.o In file included from command-arg.hh:33, from graphics-info.h:66, from simple-refmac.cc:35: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-sharpen.lo c-interface-sharpen.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-sharpen.cc -fPIC -DPIC -o .libs/c-interface-sharpen.o In file included from cc-interface.hh:42, from c-interface-refine.cc:55: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from c-interface-sfs.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-superpose.lo c-interface-superpose.cc In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-superpose.cc -fPIC -DPIC -o .libs/c-interface-superpose.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-validate.lo c-interface-validate.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-validate.cc -fPIC -DPIC -o .libs/c-interface-validate.o In file included from cc-interface.hh:42, from simple-refmac.cc:37: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ simple-refmac.cc: In function 'void wrapped_create_simple_refmac_dialog()': simple-refmac.cc:63:37: warning: 'void gtk_combo_box_text_append_text(GtkComboBoxText*, const char*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 63 | gtk_combo_box_text_append_text(GTK_COMBO_BOX_TEXT(combobox_file), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 | g.mtz_file_for_refmac.c_str()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:95, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:42:15: note: declared here 42 | void gtk_combo_box_text_append_text (GtkComboBoxText *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ simple-refmac.cc:65:31: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 65 | gtk_combo_box_set_active(GTK_COMBO_BOX(combobox_file), 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:94: /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-view.lo c-interface-view.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-view.cc -fPIC -DPIC -o .libs/c-interface-view.o In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-sequence.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-scm.cc:35: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-sharpen.cc:29: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-widgets.lo c-interface-widgets.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-widgets.cc -fPIC -DPIC -o .libs/c-interface-widgets.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from cc-interface.hh:40, from c-interface-view.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-validate.cc:49: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-waters.lo c-interface-waters.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-waters.cc -fPIC -DPIC -o .libs/c-interface-waters.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-waters-gui.lo c-interface-waters-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-waters-gui.cc -fPIC -DPIC -o .libs/c-interface-waters-gui.o In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-superpose.cc:38: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface.lo c-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface.cc -fPIC -DPIC -o .libs/c-interface.o In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-validate.cc:52: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-waters.cc:48: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-widgets.cc:35: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-waters-gui.cc:46: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-view.cc:34: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-waters.cc:52: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o c-interface-test.lo c-interface-test.cc In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-widgets.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface.cc:92: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c c-interface-test.cc -fPIC -DPIC -o .libs/c-interface-test.o In file included from c-interface.cc:97: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cc-interface.hh:42, from c-interface-superpose.cc:46: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-superpose.cc: In function 'void fill_lsq_chain_combobox_with_chain_options(GtkWidget*, int)': c-interface-superpose.cc:880:39: warning: 'void gtk_combo_box_text_remove_all(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 880 | gtk_combo_box_text_remove_all(cbt); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:95, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:55:15: note: declared here 55 | void gtk_combo_box_text_remove_all (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-superpose.cc:882:43: warning: 'void gtk_combo_box_text_append_text(GtkComboBoxText*, const char*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 882 | gtk_combo_box_text_append_text(cbt, chain_id.c_str()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:42:15: note: declared here 42 | void gtk_combo_box_text_append_text (GtkComboBoxText *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-superpose.cc:883:34: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 883 | gtk_combo_box_set_active(GTK_COMBO_BOX(chain_combobox), 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:94: /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from cc-interface.hh:42, from c-interface-validate.cc:70: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-validate.cc: In function 'GtkWidget* wrapped_create_check_waters_dialog()': c-interface-validate.cc:140:31: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 140 | gtk_combo_box_set_active(GTK_COMBO_BOX(check_waters_action_combobox), 0); // "Check" | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:94, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ c-interface-validate.cc:147:25: warning: 'void gtk_cell_layout_clear(GtkCellLayout*)' is deprecated [-Wdeprecated-declarations] 147 | gtk_cell_layout_clear(GTK_CELL_LAYOUT(combobox_molecule)); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:68: /usr/include/gtk-4.0/gtk/deprecated/gtkcelllayout.h:125:7: note: declared here 125 | void gtk_cell_layout_clear (GtkCellLayout *cell_layout); | ^~~~~~~~~~~~~~~~~~~~~ c-interface-validate.cc: In function 'void do_check_waters_by_widget(GtkWidget*)': c-interface-validate.cc:298:50: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 298 | gchar *at = gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(action_combobox)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:95: /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from command-arg.hh:33, from graphics-info.h:66, from c-interface-waters-gui.cc:50: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-utils.lo cc-interface-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-utils.cc -fPIC -DPIC -o .libs/cc-interface-utils.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-alignment.lo cc-interface-alignment.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-alignment.cc -fPIC -DPIC -o .libs/cc-interface-alignment.o In file included from cc-interface.hh:42, from c-interface-waters.cc:67: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ c-interface-widgets.cc: In function 'void remarks_dialog(int)': c-interface-widgets.cc:164:42: warning: 'GtkWidget* gtk_dialog_new()' is deprecated [-Wdeprecated-declarations] 164 | GtkWidget *d = gtk_dialog_new(); | ~~~~~~~~~~~~~~^~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkappchooserdialog.h:31, from /usr/include/gtk-4.0/gtk/gtk.h:43, from c-interface-widgets.cc:34: /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:134:12: note: declared here 134 | GtkWidget* gtk_dialog_new (void); | ^~~~~~~~~~~~~~ c-interface-widgets.cc:169:58: warning: 'GtkWidget* gtk_dialog_get_content_area(GtkDialog*)' is deprecated [-Wdeprecated-declarations] 169 | GtkWidget *vbox = gtk_dialog_get_content_area(GTK_DIALOG(d)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:176:13: note: declared here 176 | GtkWidget * gtk_dialog_get_content_area (GtkDialog *dialog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-widgets.cc:250:37: warning: 'GtkWidget* gtk_dialog_add_button(GtkDialog*, const char*, int)' is deprecated [-Wdeprecated-declarations] 250 | gtk_dialog_add_button(GTK_DIALOG(d), "Close", GTK_RESPONSE_CLOSE); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:148:12: note: declared here 148 | GtkWidget* gtk_dialog_add_button (GtkDialog *dialog, | ^~~~~~~~~~~~~~~~~~~~~ c-interface-widgets.cc: In function 'void simple_text_dialog(const std::string&, const std::string&, int, int)': c-interface-widgets.cc:608:36: warning: 'GtkWidget* gtk_dialog_new()' is deprecated [-Wdeprecated-declarations] 608 | GtkWidget *d = gtk_dialog_new(); | ~~~~~~~~~~~~~~^~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:134:12: note: declared here 134 | GtkWidget* gtk_dialog_new (void); | ^~~~~~~~~~~~~~ c-interface-widgets.cc:612:52: warning: 'GtkWidget* gtk_dialog_get_content_area(GtkDialog*)' is deprecated [-Wdeprecated-declarations] 612 | GtkWidget *vbox = gtk_dialog_get_content_area(GTK_DIALOG(d)); // new method to get vbox fromm dialog | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:176:13: note: declared here 176 | GtkWidget * gtk_dialog_get_content_area (GtkDialog *dialog); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface-widgets.cc:634:54: warning: 'GtkWidget* gtk_dialog_add_button(GtkDialog*, const char*, int)' is deprecated [-Wdeprecated-declarations] 634 | GtkWidget *close_button = gtk_dialog_add_button(GTK_DIALOG(d), "Close", 2); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkdialog.h:148:12: note: declared here 148 | GtkWidget* gtk_dialog_add_button (GtkDialog *dialog, | ^~~~~~~~~~~~~~~~~~~~~ In file included from cc-interface.hh:42, from c-interface-widgets.cc:741: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface.cc:103: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-graphics.lo cc-interface-graphics.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-graphics.cc -fPIC -DPIC -o .libs/cc-interface-graphics.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-merge.lo cc-interface-merge.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-merge.cc -fPIC -DPIC -o .libs/cc-interface-merge.o In file included from cc-interface.hh:40, from cc-interface-utils.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from c-interface-test.cc:89: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ c-interface.cc: In function 'void mono_mode()': c-interface.cc:1188:53: warning: 'int gtk_widget_get_allocated_width(GtkWidget*)' is deprecated: Use 'gtk_widget_get_width' instead [-Wdeprecated-declarations] 1188 | int x_size = gtk_widget_get_allocated_width(gl_widget); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/gtkwidget.h:475:23: note: declared here 475 | int gtk_widget_get_allocated_width (GtkWidget *widget); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface.cc:1189:54: warning: 'int gtk_widget_get_allocated_height(GtkWidget*)' is deprecated: Use 'gtk_widget_get_height' instead [-Wdeprecated-declarations] 1189 | int y_size = gtk_widget_get_allocated_height(gl_widget); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:477:23: note: declared here 477 | int gtk_widget_get_allocated_height (GtkWidget *widget); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from c-interface-test.cc:94: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ c-interface.cc: In function 'void make_image_povray(const char*)': c-interface.cc:4553:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 4553 | gtk_widget_get_allocation(graphics_info_t::glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ c-interface.cc: In function 'void make_image_povray_py(const char*)': c-interface.cc:4577:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 4577 | gtk_widget_get_allocation(graphics_info_t::glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ c-interface.cc: In function 'void sequence_view(int)': c-interface.cc:7696:57: warning: 'GtkStyleContext* gtk_widget_get_style_context(GtkWidget*)' is deprecated [-Wdeprecated-declarations] 7696 | GtkStyleContext *sc = gtk_widget_get_style_context(button); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:713:19: note: declared here 713 | GtkStyleContext * gtk_widget_get_style_context (GtkWidget *widget); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ c-interface.cc:7697:34: warning: 'void gtk_style_context_add_class(GtkStyleContext*, const char*)' is deprecated [-Wdeprecated-declarations] 7697 | gtk_style_context_add_class(sc, "circular"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:268: /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:90:10: note: declared here 90 | void gtk_style_context_add_class (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from cc-interface.hh:40, from cc-interface-graphics.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from cc-interface-alignment.cc:41: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-molecular-representation.lo cc-interface-molecular-representation.cc In file included from molecule-class-info.h:128, from graphics-info.h:72, from cc-interface-utils.cc:3: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-molecular-representation.cc -fPIC -DPIC -o .libs/cc-interface-molecular-representation.o In file included from molecule-class-info.h:128, from graphics-info.h:72, from c-interface-test.cc:102: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from cc-interface-merge.cc:38: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-molecular-symmetry.lo cc-interface-molecular-symmetry.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-molecular-symmetry.cc -fPIC -DPIC -o .libs/cc-interface-molecular-symmetry.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cc-interface-graphics.cc:31: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-scripting.lo cc-interface-scripting.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-subprocess.lo cc-interface-subprocess.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-scripting.cc -fPIC -DPIC -o .libs/cc-interface-scripting.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-subprocess.cc -fPIC -DPIC -o .libs/cc-interface-subprocess.o In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from c-interface-test.cc:434: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ c-interface-test.cc: In function 'PyObject* test_function_py(PyObject*, PyObject*)': c-interface-test.cc:1567:31: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 1567 | gtk_widget_get_allocation(graphics_info_t::glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-map-utils.lo cc-interface-map-utils.cc In file included from command-arg.hh:33, from graphics-info.h:66, from cc-interface-molecular-representation.cc:37: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-map-utils.cc -fPIC -DPIC -o .libs/cc-interface-map-utils.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-png.lo cc-interface-png.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-png.cc -fPIC -DPIC -o .libs/cc-interface-png.o In file included from cc-interface.hh:42, from cc-interface-alignment.cc:43: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from cc-interface.hh:40, from cc-interface-molecular-symmetry.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cc-interface.hh:40, from cc-interface-subprocess.cc:3: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:42, from cc-interface-merge.cc:42: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from cc-interface-scripting.cc:43: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface-png.cc:49: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:42, from cc-interface-molecular-representation.cc:39: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cc-interface-molecular-symmetry.cc:37: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cc-interface-subprocess.cc:4: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from cc-interface-map-utils.cc:30: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-validation.lo cc-interface-validation.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-validation.cc -fPIC -DPIC -o .libs/cc-interface-validation.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cc-interface-user-defined-atom-colours.lo cc-interface-user-defined-atom-colours.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cc-interface-user-defined-atom-colours.cc -fPIC -DPIC -o .libs/cc-interface-user-defined-atom-colours.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cc-interface-png.cc:55: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../coot-utils/json.hpp:39, from cc-interface-validation.cc:29: /usr/include/c++/15/ciso646:49:6: warning: #warning " is not a standard header since C++20, use to detect implementation-specific macros" [-Wcpp] 49 | # warning " is not a standard header since C++20, use to detect implementation-specific macros" | ^~~~~~~ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o pythonic-cfc.lo pythonic-cfc.cc In file included from cc-interface.hh:40, from cc-interface-validation.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:40, from cc-interface-user-defined-atom-colours.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c pythonic-cfc.cc -fPIC -DPIC -o .libs/pythonic-cfc.o In file included from cc-interface.hh:42, from cc-interface-map-utils.cc:31: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ In file included from /usr/include/glib-2.0/gobject/gobject.h:30, from /usr/include/glib-2.0/gobject/gbinding.h:31, from /usr/include/glib-2.0/glib-object.h:24, from /usr/include/gtk-4.0/gtk/css/gtkcssenumtypes.h:11, from /usr/include/gtk-4.0/gtk/css/gtkcss.h:33, from /usr/include/gtk-4.0/gtk/gtk.h:29, from cc-interface.hh:30, from cc-interface-png.cc:53: cc-interface-png.cc: In lambda function: cc-interface-png.cc:322:37: warning: 'void gdk_cairo_set_source_pixbuf(cairo_t*, const GdkPixbuf*, double, double)' is deprecated [-Wdeprecated-declarations] 322 | gdk_cairo_set_source_pixbuf(cr, pixbuf, 0, 0); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /usr/include/glib-2.0/gobject/gsignal.h:549:60: note: in definition of macro 'g_signal_connect' 549 | g_signal_connect_data ((instance), (detailed_signal), (c_handler), (data), NULL, (GConnectFlags) 0) | ^~~~~~~~~ cc-interface-png.cc:320:46: note: in expansion of macro 'G_CALLBACK' 320 | g_signal_connect(drawing_area, "draw", G_CALLBACK(+[](GtkWidget *widget, cairo_t *cr, gpointer user_data) { | ^~~~~~~~~~ In file included from /usr/include/gtk-4.0/gdk/gdk.h:30, from /usr/include/gtk-4.0/gtk/gtk.h:30: /usr/include/gtk-4.0/gdk/gdkcairo.h:34:12: note: declared here 34 | void gdk_cairo_set_source_pixbuf (cairo_t *cr, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cfc-2025.lo cfc-2025.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 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"-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 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-fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cfc-2025.cc -fPIC -DPIC -o .libs/cfc-2025.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cfc-gui.cc -fPIC -DPIC -o .libs/cfc-gui.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 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-DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o change-dir.lo change-dir.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c change-dir.cc -fPIC -DPIC -o .libs/change-dir.o In file included from change-dir.cc:39: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o cmtz-interface.lo cmtz-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c cmtz-interface.cc -fPIC -DPIC -o .libs/cmtz-interface.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o command-line.lo command-line.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c command-line.cc -fPIC -DPIC -o .libs/command-line.o In file included from molecule-class-info.h:128, from graphics-info.h:72, from cc-interface-validation.cc:28: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cc-interface-user-defined-atom-colours.cc:29: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cc-interface.hh:40, from cfc-gui.cc:4: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:40, from pythonic-cfc.cc:39: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o command-line-extern.lo command-line-extern.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c command-line-extern.cc -fPIC -DPIC -o .libs/command-line-extern.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-application.lo coot-application.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-application.cc -fPIC -DPIC -o .libs/coot-application.o In file included from cmtz-interface.cc:53: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cfc-2025.cc:6: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from pythonic-cfc.cc:40: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from command-line.cc:61: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cfc-2025.cc:7: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-colour.lo coot-colour.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-colour.cc -fPIC -DPIC -o .libs/coot-colour.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cfc-gui.cc:7: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from cmtz-interface.cc:58: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-nomenclature.lo coot-nomenclature.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-nomenclature.cc -fPIC -DPIC -o .libs/coot-nomenclature.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -I/usr/include/python3.13 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O2 -D_REENTRANT -Wall -Wunused -c -o coot-glue-gtk2.lo coot-glue-gtk2.c In file included from cc-interface.hh:42, from command-line.cc:68: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DPKGDATADIR=\"/usr/share/coot\" -DHAVE_SYS_STDTYPES_H=0 -I/usr/include/python3.13 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O2 -D_REENTRANT -Wall -Wunused -c coot-glue-gtk2.c -fPIC -DPIC -o .libs/coot-glue-gtk2.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-glue-gtk2-python.lo coot-glue-gtk2-python.cc cfc-gui.cc: In member function 'void cfc_gui_t::fill_waters_grid(const std::vector&)': cfc-gui.cc:317:68: warning: 'GtkStyleContext* gtk_widget_get_style_context(GtkWidget*)' is deprecated [-Wdeprecated-declarations] 317 | GtkStyleContext *context = gtk_widget_get_style_context(b); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from cc-interface.hh:30: /usr/include/gtk-4.0/gtk/gtkwidget.h:713:19: note: declared here 713 | GtkStyleContext * gtk_widget_get_style_context (GtkWidget *widget); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cfc-gui.cc:319:43: warning: 'void gtk_style_context_add_class(GtkStyleContext*, const char*)' is deprecated [-Wdeprecated-declarations] 319 | gtk_style_context_add_class(context, "custom-cfc-button"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:268: /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:90:10: note: declared here 90 | void gtk_style_context_add_class (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ cfc-gui.cc:321:43: warning: 'void gtk_style_context_add_class(GtkStyleContext*, const char*)' is deprecated [-Wdeprecated-declarations] 321 | gtk_style_context_add_class(context, "custom-cfc-blank-button"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:90:10: note: declared here 90 | void gtk_style_context_add_class (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ cfc-gui.cc: In member function 'void cfc_gui_t::fill_ligands_grid(const std::vector&)': cfc-gui.cc:425:68: warning: 'GtkStyleContext* gtk_widget_get_style_context(GtkWidget*)' is deprecated [-Wdeprecated-declarations] 425 | GtkStyleContext *context = gtk_widget_get_style_context(b); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:713:19: note: declared here 713 | GtkStyleContext * gtk_widget_get_style_context (GtkWidget *widget); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cfc-gui.cc:428:43: warning: 'void gtk_style_context_add_class(GtkStyleContext*, const char*)' is deprecated [-Wdeprecated-declarations] 428 | gtk_style_context_add_class(context, "custom-cfc-button"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:90:10: note: declared here 90 | void gtk_style_context_add_class (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ cfc-gui.cc:431:43: warning: 'void gtk_style_context_add_class(GtkStyleContext*, const char*)' is deprecated [-Wdeprecated-declarations] 431 | gtk_style_context_add_class(context, "custom-cfc-blank-button"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkstylecontext.h:90:10: note: declared here 90 | void gtk_style_context_add_class (GtkStyleContext *context, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from command-arg.hh:33, from graphics-info.h:66, from command-line-extern.cc:41: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-glue-gtk2-python.cc -fPIC -DPIC -o .libs/coot-glue-gtk2-python.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-hydrogens.lo coot-hydrogens.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-hydrogens.cc -fPIC -DPIC -o .libs/coot-hydrogens.o In file included from command-arg.hh:33, from graphics-info.h:66, from coot-application.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ cmtz-interface.cc: In function 'void my_combo_box_text_add_items(GtkComboBox*, const std::vector&, int)': cmtz-interface.cc:541:44: warning: 'GtkListStore* gtk_list_store_new(int, ...)' is deprecated: Use 'GListStore' instead [-Wdeprecated-declarations] 541 | GtkListStore *store = gtk_list_store_new(1, G_TYPE_STRING); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkentrycompletion.h:26, from /usr/include/gtk-4.0/gtk/gtkentry.h:39, from /usr/include/gtk-4.0/gtk/deprecated/gtktreeview.h:27, from /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:26, from /usr/include/gtk-4.0/gtk/gtk.h:94, from cmtz-interface.cc:43: /usr/include/gtk-4.0/gtk/deprecated/gtkliststore.h:63:15: note: declared here 63 | GtkListStore *gtk_list_store_new (int n_columns, | ^~~~~~~~~~~~~~~~~~ cmtz-interface.cc:545:28: warning: 'void gtk_list_store_append(GtkListStore*, GtkTreeIter*)' is deprecated: Use 'GListStore' instead [-Wdeprecated-declarations] 545 | gtk_list_store_append(store, &iter); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkliststore.h:125:15: note: declared here 125 | void gtk_list_store_append (GtkListStore *list_store, | ^~~~~~~~~~~~~~~~~~~~~ cmtz-interface.cc:546:25: warning: 'void gtk_list_store_set(GtkListStore*, GtkTreeIter*, ...)' is deprecated: Use 'GListStore' instead [-Wdeprecated-declarations] 546 | gtk_list_store_set(store, &iter, 0, col_lab.c_str(), -1); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkliststore.h:81:15: note: declared here 81 | void gtk_list_store_set (GtkListStore *list_store, | ^~~~~~~~~~~~~~~~~~ cmtz-interface.cc:553:58: warning: 'GtkCellRenderer* gtk_cell_renderer_text_new()' is deprecated [-Wdeprecated-declarations] 553 | GtkCellRenderer *renderer = gtk_cell_renderer_text_new(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/gtk-4.0/gtk/deprecated/gtkcellrendereraccel.h:24, from /usr/include/gtk-4.0/gtk/gtk.h:70: /usr/include/gtk-4.0/gtk/deprecated/gtkcellrenderertext.h:62:18: note: declared here 62 | GtkCellRenderer *gtk_cell_renderer_text_new (void); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ cmtz-interface.cc:554:30: warning: 'void gtk_cell_layout_pack_start(GtkCellLayout*, GtkCellRenderer*, gboolean)' is deprecated [-Wdeprecated-declarations] 554 | gtk_cell_layout_pack_start(GTK_CELL_LAYOUT(combobox), renderer, TRUE); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:68: /usr/include/gtk-4.0/gtk/deprecated/gtkcelllayout.h:115:7: note: declared here 115 | void gtk_cell_layout_pack_start (GtkCellLayout *cell_layout, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ cmtz-interface.cc:556:27: warning: 'void gtk_combo_box_set_model(GtkComboBox*, GtkTreeModel*)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 556 | gtk_combo_box_set_model(GTK_COMBO_BOX(combobox), model); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:97:15: note: declared here 97 | void gtk_combo_box_set_model (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~ cmtz-interface.cc:559:31: warning: 'void gtk_combo_box_set_active(GtkComboBox*, int)' is deprecated: Use 'GtkDropDown' instead [-Wdeprecated-declarations] 559 | gtk_combo_box_set_active(GTK_COMBO_BOX(combobox), active_label_index); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/deprecated/gtkcombobox.h:86:15: note: declared here 86 | void gtk_combo_box_set_active (GtkComboBox *combo_box, | ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../ideal/simple-restraint.hh:162, from coot-nomenclature.cc:26: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-phi-psi.lo coot-phi-psi.cc In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-phi-psi.cc -fPIC -DPIC -o .libs/coot-phi-psi.o In file included from cc-interface.hh:42, from command-line-extern.cc:49: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot_pythonmodule.lo coot_pythonmodule.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot_pythonmodule.cc -fPIC -DPIC -o .libs/coot_pythonmodule.o coot-application.cc: In function 'int start_using_application(int, char**)': coot-application.cc:103:69: warning: 'G_APPLICATION_FLAGS_NONE' is deprecated: Use 'G_APPLICATION_DEFAULT_FLAGS' instead [-Wdeprecated-declarations] 103 | GtkApplication *app = gtk_application_new ("org.emsley.coot", G_APPLICATION_FLAGS_NONE); | ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/glib-2.0/gio/giotypes.h:30, from /usr/include/glib-2.0/gio/gio.h:28, from /usr/include/gtk-4.0/gtk/css/gtkcsssection.h:24, from /usr/include/gtk-4.0/gtk/css/gtkcss.h:36, from /usr/include/gtk-4.0/gtk/gtk.h:29, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/glib-2.0/gio/gioenums.h:1556:3: note: declared here 1556 | G_APPLICATION_FLAGS_NONE GIO_DEPRECATED_ENUMERATOR_IN_2_74_FOR(G_APPLICATION_DEFAULT_FLAGS), | ^~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o coot-setup-python.lo coot-setup-python.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c coot-setup-python.cc -fPIC -DPIC -o .libs/coot-setup-python.o In file included from ../lidia-core/lbg-molfile.hh:32, from ../lidia-core/rdkit-interface.hh:29, from coot-hydrogens.cc:28: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ swig -o coot_wrap_guile_pre.cc -DUSE_MOLECULES_TO_TRIANGLES -DCOOT_USE_GTK2_INTERFACE -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_LIBCURL -I../src -I.. -guile -c++ ../src/coot.i /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o curlew-gtk4.lo curlew-gtk4.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c curlew-gtk4.cc -fPIC -DPIC -o .libs/curlew-gtk4.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o draw.lo draw.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c draw.cc -fPIC -DPIC -o .libs/draw.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o drag-and-drop.lo drag-and-drop.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c drag-and-drop.cc -fPIC -DPIC -o .libs/drag-and-drop.o In file included from cc-interface.hh:40, from coot-setup-python.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from coot_pythonmodule.cc:123: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from json.hpp:39, from curlew-gtk4.cc:39: /usr/include/c++/15/ciso646:49:6: warning: #warning " is not a standard header since C++20, use to detect implementation-specific macros" [-Wcpp] 49 | # warning " is not a standard header since C++20, use to detect implementation-specific macros" | ^~~~~~~ In file included from cc-interface.hh:40, from drag-and-drop.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o draw-generic-display-objects.lo draw-generic-display-objects.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c draw-generic-display-objects.cc -fPIC -DPIC -o .libs/draw-generic-display-objects.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o dynamic-validation.lo dynamic-validation.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c dynamic-validation.cc -fPIC -DPIC -o .libs/dynamic-validation.o In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from curlew-gtk4.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o eyes.lo eyes.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o event-controller-callbacks.lo event-controller-callbacks.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 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-DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 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-I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c file-system-utils.cc -fPIC -DPIC -o .libs/file-system-utils.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o fit-loop-gui.lo fit-loop-gui.cc In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c fit-loop-gui.cc -fPIC -DPIC -o .libs/fit-loop-gui.o In file included from file-system-utils.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o flev.lo flev.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c flev.cc -fPIC -DPIC -o .libs/flev.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o framebuffer.lo framebuffer.cc In file included from command-arg.hh:33, from graphics-info.h:66, from draw.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c framebuffer.cc -fPIC -DPIC -o .libs/framebuffer.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o old-generic-display-object.lo old-generic-display-object.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c old-generic-display-object.cc -fPIC -DPIC -o .libs/old-generic-display-object.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o gaussian-surface.lo gaussian-surface.cc In file included from draw-generic-display-objects.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c gaussian-surface.cc -fPIC -DPIC -o .libs/gaussian-surface.o In file included from molecule-class-info.h:128, from graphics-info.h:72, from coot-setup-python.cc:41: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from probe-clash-score.hh:32, from ligand-check.hh:30, from c-interface-ligands.hh:34, from flev.cc:37: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o generic-objects.lo generic-objects.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c generic-objects.cc -fPIC -DPIC -o .libs/generic-objects.o In file included from molecule-class-info.h:128, from graphics-info.h:72, from curlew-gtk4.cc:32: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from c-interface-ligands.hh:35: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from flev.cc:39: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ coot-setup-python.cc: In function 'void setup_python_basic(int, char**)': coot-setup-python.cc:109:19: warning: 'void PySys_SetArgvEx(int, wchar_t**, int)' is deprecated [-Wdeprecated-declarations] 109 | PySys_SetArgvEx(argc, _argv, update_path); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/python3.13/Python.h:126, from coot-setup-python.cc:24: /usr/include/python3.13/sysmodule.h:11:38: note: declared here 11 | Py_DEPRECATED(3.11) PyAPI_FUNC(void) PySys_SetArgvEx(int, wchar_t **, int); | ^~~~~~~~~~~~~~~ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cc-interface.hh:40, from gaussian-surface.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from fit-loop-gui.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from dynamic-validation.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from event-controller-callbacks.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72, from draw-generic-display-objects.cc:38: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from cc-interface.hh:40, from generic-objects.cc:45: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from old-generic-display-object.cc:33: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ draw-generic-display-objects.cc: In static member function 'static void graphics_info_t::draw_generic_objects(unsigned int)': draw-generic-display-objects.cc:217:47: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 217 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from molecule-class-info.h:128, from graphics-info.h:72, from gaussian-surface.cc:29: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ fit-loop-gui.cc: In function 'void fit_loop_using_dialog()': fit-loop-gui.cc:184:64: warning: 'char* gtk_combo_box_text_get_active_text(GtkComboBoxText*)' is deprecated: Use 'GtkDropDown and GtkStringList' instead [-Wdeprecated-declarations] 184 | std::string chain_id = gtk_combo_box_text_get_active_text(GTK_COMBO_BOX_TEXT(chain_combobox_text)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtk.h:95, from widget-from-builder.hh:31, from fit-loop-gui.cc:30: /usr/include/gtk-4.0/gtk/deprecated/gtkcomboboxtext.h:57:15: note: declared here 57 | char *gtk_combo_box_text_get_active_text (GtkComboBoxText *combo_box); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o geometry-graphs.lo geometry-graphs.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c geometry-graphs.cc -fPIC -DPIC -o .libs/geometry-graphs.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o get-residue.lo get-residue.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c get-residue.cc -fPIC -DPIC -o .libs/get-residue.o In file included from cc-interface.hh:42, from flev.cc:57: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ event-controller-callbacks.cc: In lambda function: event-controller-callbacks.cc:131:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 131 | gtk_widget_get_allocation(gl_area, &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from event-controller-callbacks.hh:29, from event-controller-callbacks.cc:30: /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ event-controller-callbacks.cc: In lambda function: event-controller-callbacks.cc:325:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 325 | gtk_widget_get_allocation(gl_area, &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ event-controller-callbacks.cc: In member function 'void graphics_info_t::do_drag_pan_gtk4(GtkWidget*, double, double)': event-controller-callbacks.cc:662:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 662 | gtk_widget_get_allocation(widget, &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ event-controller-callbacks.cc: In member function 'void graphics_info_t::do_drag_pan_gtk3(GtkWidget*, double, double)': event-controller-callbacks.cc:736:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 736 | gtk_widget_get_allocation(widget, &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ event-controller-callbacks.cc: In member function 'void graphics_info_t::on_glarea_motion(GtkEventControllerMotion*, gdouble, gdouble, gpointer)': event-controller-callbacks.cc:1015:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 1015 | gtk_widget_get_allocation(glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from molecule-class-info.h:128, from graphics-info.h:72, from generic-objects.cc:51: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o get-monomer.lo get-monomer.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c get-monomer.cc -fPIC -DPIC -o .libs/get-monomer.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o gl-rama-plot.lo gl-rama-plot.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c gl-rama-plot.cc -fPIC -DPIC -o .libs/gl-rama-plot.o In file included from command-arg.hh:33, from graphics-info.h:66, from get-residue.cc:34: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from gl-rama-plot.cc:340: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ gl-rama-plot.cc: In member function 'std::pair, glm::vec<2, float, glm::packed_highp> > gl_rama_plot_t::get_munged_offset_and_scale(screen_position_origins_t, const glm::vec2&, float, float, int, int) const': gl-rama-plot.cc:429:82: note: parameter passing for argument of type 'std::pair, glm::vec<2, float, glm::packed_highp> >' when C++17 is enabled changed to match C++14 in GCC 10.1 429 | int glarea_width, int glarea_height) const { | ^~~~~ In file included from get-monomer.cc:28: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o globjects.lo globjects.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c globjects.cc -fPIC -DPIC -o .libs/globjects.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o globularize.lo globularize.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c globularize.cc -fPIC -DPIC -o .libs/globularize.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 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-DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info.lo graphics-info.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include 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-o .libs/graphics-info.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi 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-DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include 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compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-defines-gtk4.cc -fPIC -DPIC -o .libs/graphics-info-defines-gtk4.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-draw.lo graphics-info-draw.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-draw.cc -fPIC -DPIC -o .libs/graphics-info-draw.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-draw-utils.lo graphics-info-draw-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-draw-utils.cc -fPIC -DPIC -o .libs/graphics-info-draw-utils.o In file included from molecule-class-info.h:128, from graphics-info.h:72, from get-monomer.cc:29: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from graphics-info.cc:61: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-draw-models.lo graphics-info-draw-models.cc In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-draw-models.cc -fPIC -DPIC -o .libs/graphics-info-draw-models.o In file included from command-arg.hh:33, from graphics-info.h:66, from globularize.cc:31: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from cc-interface.hh:42, from get-monomer.cc:34: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-geometry-graphs.lo graphics-info-geometry-graphs.cc In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info.cc:68: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-geometry-graphs.cc -fPIC -DPIC -o .libs/graphics-info-geometry-graphs.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-graphs.lo graphics-info-graphs.cc In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-defines.cc:36: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-graphs.cc -fPIC -DPIC -o .libs/graphics-info-graphs.o /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-gui.lo graphics-info-gui.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-gui.cc -fPIC -DPIC -o .libs/graphics-info-gui.o In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-defines-gtk4.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-draw.cc:49: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-init.lo graphics-info-init.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-init.cc -fPIC -DPIC -o .libs/graphics-info-init.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-draw-utils.cc:2: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" -DPACKAGE_STRING=\"coot\ 1.1.18\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_PYTHON=/\*\*/ -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DPKGPYTHONDIR='"/usr/lib/python3/dist-packages/coot"' -DPYTHONDIR='"/usr/lib/python3/dist-packages"' -DXDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-aarch64-DebianGNU/Linux-default-gtk4"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c -o graphics-info-intermediate.lo graphics-info-intermediate.cc In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from graphics-info-graphs.cc:51: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-intermediate.cc -fPIC -DPIC -o .libs/graphics-info-intermediate.o In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from cc-interface.hh:42, from graphics-info.cc:92: ../coot-utils/coot-density-stats.hh: In member function 'std::pair coot::util::density_stats_info_t::mean_and_variance() const': ../coot-utils/coot-density-stats.hh:63:62: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 63 | std::pair mean_and_variance() const { | ^ graphics-info.cc: In static member function 'static GtkAllocation graphics_info_t::get_glarea_allocation()': graphics-info.cc:148:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 148 | gtk_widget_get_allocation(glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from graphics-info.cc:41: /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-draw-models.cc:27: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from ../lidia-core/lbg-molfile.hh:32, from ../coords/mmdb.hh:27, from graphics-info-gui.cc:66: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ graphics-info-draw.cc: In static member function 'static glm::mat4 graphics_info_t::get_molecule_mvp(bool)': graphics-info-draw.cc:646:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 646 | gtk_widget_get_allocation(graphics_info_t::glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from graphics-info-draw.cc:44: /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static glm::vec4 graphics_info_t::unproject(float)': graphics-info-draw.cc:746:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 746 | gtk_widget_get_allocation(graphics_info_t::glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_intermediate_atoms(unsigned int)': graphics-info-draw.cc:1086:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 1086 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In lambda function: graphics-info-draw.cc:1710:107: note: parameter passing for argument of type 'std::pair, glm::vec<2, float, glm::packed_highp> >' when C++17 is enabled changed to match C++14 in GCC 10.1 1710 | return std::pair(offset_rel, scales_new); | ^ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_hud_refinement_dialog_arrow_tab()': graphics-info-draw.cc:1723:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 1723 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_hud_colour_bar()': graphics-info-draw.cc:1757:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 1757 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-graphs.cc:59: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_meshed_generic_display_object_meshes(unsigned int)': graphics-info-draw.cc:2319:35: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 2319 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_molecules_other_meshes(unsigned int)': graphics-info-draw.cc:2477:47: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 2477 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In member function 'void graphics_info_t::setup_hud_geometry_bars()': graphics-info-draw.cc:2918:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 2918 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_hud_buttons()': graphics-info-draw.cc:3139:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3139 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_hud_ramachandran_plot()': graphics-info-draw.cc:3226:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3226 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In lambda function: graphics-info-draw.cc:3268:67: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3268 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In member function 'void graphics_info_t::show_accept_reject_hud_buttons()': graphics-info-draw.cc:3443:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3443 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In member function 'void graphics_info_t::reset_hud_buttons_size_and_position()': graphics-info-draw.cc:3556:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3556 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static float graphics_info_t::get_x_base_for_hud_geometry_bars()': graphics-info-draw.cc:3572:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3572 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_hud_geometry_bars()': graphics-info-draw.cc:3597:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3597 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In member function 'std::pair graphics_info_t::check_if_hud_bar_moused_over_or_act_on_hud_bar_clicked(double, double, bool)': graphics-info-draw.cc:3935:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 3935 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In member function 'bool graphics_info_t::check_if_hud_button_moused_over_or_act_on_hit(double, double, bool, bool)': graphics-info-draw.cc:4286:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 4286 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_hud_geometry_tooltip()': graphics-info-draw.cc:4371:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 4371 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from graphics-info-draw.cc:4386: ../analysis/stats.hh: In member function 'std::pair coot::stats::single::median_and_iqr() const': ../analysis/stats.hh:139:59: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 139 | std::pair median_and_iqr() const { | ^ graphics-info-draw.cc: In member function 'bool graphics_info_t::check_if_hud_rama_plot_clicked(double, double)': graphics-info-draw.cc:4455:41: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 4455 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In lambda function: graphics-info-draw.cc:4633:32: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 4633 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-gui.cc:72: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_bad_nbc_atom_pair_markers(unsigned int)': graphics-info-draw.cc:5515:38: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 5515 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_chiral_volume_outlier_markers(unsigned int)': graphics-info-draw.cc:5565:48: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 5565 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_hud_ligand_view()': graphics-info-draw.cc:5757:38: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 5757 | gtk_widget_get_allocation(graphics_info_t::glareas[0], &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw.cc: In static member function 'static void graphics_info_t::draw_extra_distance_restraints(int)': graphics-info-draw.cc:6253:38: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 6253 | gtk_widget_get_allocation(GTK_WIDGET(glareas[0]), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from graphics-ligand-mesh-molecule.hh:30, from graphics-info.h:151: ../lidia-core/lig-build.hh: In member function 'std::pair lig_build::bond_t::coords_for_single_bond(const lig_build::atom_t&, const lig_build::atom_t&, bool, bool) const': ../lidia-core/lig-build.hh:551:84: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 551 | bool at_2_is_singleton) const { | ^ In file included from command-arg.hh:33, from graphics-info.h:66, from graphics-info-init.cc:32: ../utils/coot-utils.hh: In member function 'std::pair coot::gauss_legendre_t::weight_abscissa(int)': ../utils/coot-utils.hh:215:57: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 215 | std::pair weight_abscissa(int idx) { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ In file included from molecule-class-info.h:128, from graphics-info.h:72: ../ideal/simple-restraint.hh: In member function 'std::pair coot::restraints_container_t::zo_rama_grad(const std::string&, const double&, const double&) const': ../ideal/simple-restraint.hh:2604:90: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 2604 | const double &phir, const double &psir) const { | ^ graphics-info-draw-models.cc: In static member function 'static void graphics_info_t::draw_models_for_ssao()': graphics-info-draw-models.cc:37:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 37 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/gtk-4.0/gtk/gtkapplication.h:26, from /usr/include/gtk-4.0/gtk/gtkwindow.h:32, from /usr/include/gtk-4.0/gtk/gtkaboutdialog.h:29, from /usr/include/gtk-4.0/gtk/gtk.h:33, from ../validation-graphs/validation-graphs.hh:30, from graphics-info.h:33: /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ graphics-info-draw-models.cc: In static member function 'static void graphics_info_t::draw_molecules_for_ssao()': graphics-info-draw-models.cc:58:29: warning: 'void gtk_widget_get_allocation(GtkWidget*, GtkAllocation*)' is deprecated: Use 'gtk_widget_compute_bounds' instead [-Wdeprecated-declarations] 58 | gtk_widget_get_allocation(GTK_WIDGET(gl_area), &allocation); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/gtk-4.0/gtk/gtkwidget.h:482:23: note: declared here 482 | void gtk_widget_get_allocation (GtkWidget *widget, | ^~~~~~~~~~~~~~~~~~~~~~~~~ Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-defines.cc -fPIC -DPIC -o .libs/graphics-info-defines.o Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info.cc -fPIC -DPIC -o .libs/graphics-info.o Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-intermediate.cc -fPIC -DPIC -o .libs/graphics-info-intermediate.o make: *** [debian/rules:93: binary] Terminated Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-gui.cc -fPIC -DPIC -o .libs/graphics-info-gui.o make[1]: *** [Makefile:715: all-recursive] Terminated make[2]: *** [Makefile:2420: graphics-info.lo] Error 1 make[2]: *** [Makefile:2420: graphics-info-defines.lo] Error 1 make[2]: *** [Makefile:2420: graphics-info-gui.lo] Error 1 make[2]: *** [Makefile:2420: graphics-info-intermediate.lo] Error 1 Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-defines-gtk4.cc -fPIC -DPIC -o .libs/graphics-info-defines-gtk4.o Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c globularize.cc -fPIC -DPIC -o .libs/globularize.o make[2]: *** [Makefile:2420: graphics-info-defines-gtk4.lo] Error 1 make[2]: *** [Makefile:2420: globularize.lo] Error 1 Terminated Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-draw-models.cc -fPIC -DPIC -o .libs/graphics-info-draw-models.o make[2]: *** [Makefile:2420: graphics-info-draw-models.lo] Error 1 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-graphs.cc -fPIC -DPIC -o .libs/graphics-info-graphs.o Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-draw.cc -fPIC -DPIC -o .libs/graphics-info-draw.o make[2]: *** [Makefile:2420: graphics-info-graphs.lo] Error 1 Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-draw-utils.cc -fPIC -DPIC -o .libs/graphics-info-draw-utils.o make[2]: *** [Makefile:2420: graphics-info-draw.lo] Error 1 Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c graphics-info-init.cc -fPIC -DPIC -o .libs/graphics-info-init.o Terminated g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"1.1.18\" "-DPACKAGE_STRING=\"coot 1.1.18\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"1.1.18\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_LIBM=1 -DHAVE_LIBGSLCBLAS=1 -DHAVE_LIBGSL=1 -DHAVE_PYTHON=\"3.13\" "-DHAVE_BOOST=/**/" "-DHAVE_BOOST_THREAD=/**/" "-DHAVE_BOOST_PYTHON=/**/" -I. -DUSE_PYTHON -I/usr/include/gtk-4.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib/aarch64-linux-gnu/glib-2.0/include -I/usr/include/sysprof-6 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/aarch64-linux-gnu -I/usr/include/webp -I/usr/include/graphene-1.0 -I/usr/lib/aarch64-linux-gnu/graphene-1.0/include -pthread -I.. -I/usr/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -pthread -I/usr/include -DMAKE_ENHANCED_LIGAND_TOOLS -I/usr/include -DHAVE_SYS_STDTYPES_H=0 -DUSE_MOLECULES_TO_TRIANGLES -DHAVE_SSMLIB -DMMDB_HAS_LINK_DISTANCE -DCLIPPER_HAS_TOP8000 -DWITH_SOUND -DUSE_SQLITE3 -I/usr/lib/aarch64-linux-gnu/include -DUSE_GEMMI=1 -Wdate-time -D_FORTIFY_SOURCE=2 -DUSE_MOLECULES_TO_TRIANGLES -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/lib/python3/dist-packages/coot\" -DPYTHONDIR=\"/usr/lib/python3/dist-packages\" -DXDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-aarch64-DebianGNU/Linux-default-gtk4\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -I/usr/lib/python3/dist-packages/PyGObject-3.42.2-py3.9-linux-x86_64.egg/include -I/usr/include/python3.13 -fopenmp -g -O2 -ffile-prefix-map=/build/reproducible-path/coot-1.1.18+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wall -Wno-unused -std=c++20 -c get-monomer.cc -fPIC -DPIC -o .libs/get-monomer.o make[2]: *** [Makefile:2420: graphics-info-draw-utils.lo] Error 1 make[2]: *** [Makefile:2420: get-monomer.lo] Error 1 make[2]: *** [Makefile:2420: graphics-info-init.lo] Error 1 I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem W: Stray processes left from build: * system-pbuilder-build-coot_1.1.18\x2bdfsg\x2d1-543850.slice - Slice /system/pbuilder/build/coot_1.1.18+dfsg-1/543850 Loaded: loaded Active: active since Wed 2026-10-21 01:02:52 -12; 31min ago Invocation: 481d550fb3854b24b73b86ce1b714b99 Tasks: 6 Memory: 5.9G (peak: 17.1G, swap: 2.6G, swap peak: 2.6G) CPU: 1h 21min 27.578s CGroup: /system.slice/system-pbuilder.slice/system-pbuilder-build.slice/system-pbuilder-build-coot_1.1.18\x2bdfsg\x2d1.slice/system-pbuilder-build-coot_1.1.18\x2bdfsg\x2d1-543850.slice `-run-p631157-i126450741.scope |-1136221 "[cc1plus]" |-1136979 "[cc1plus]" |-1137340 "[cc1plus]" |-1137960 "[cc1plus]" |-1139746 "[cc1plus]" `-1140624 "[cc1plus]" Oct 21 01:02:52 codethink03-arm64 systemd[1]: Created slice system-pbuilder-build-coot_1.1.18\x2bdfsg\x2d1-543850.slice - Slice /system/pbuilder/build/coot_1.1.18+dfsg-1/543850. Oct 21 01:33:56 codethink03-arm64 systemd[1]: system-pbuilder-build-coot_1.1.18\x2bdfsg\x2d1-543850.slice: A process of this unit has been killed by the OOM killer. I: cleaning the build env I: removing directory /srv/workspace/pbuilder/543850 and its subdirectories Thu Sep 18 07:10:59 UTC 2025 W: No second build log, what happened?