I: pbuilder: network access will be disabled during build I: Current time: Wed Nov 20 10:57:05 -12 2024 I: pbuilder-time-stamp: 1732143425 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 [macromoleculebuilder_4.0.0+dfsg-3.1~exp1.dsc] I: copying [./macromoleculebuilder_4.0.0+dfsg.orig.tar.xz] I: copying [./macromoleculebuilder_4.0.0+dfsg-3.1~exp1.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Feb 2 16:58:12 2024 gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 gpgv: issuer "ginggs@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./macromoleculebuilder_4.0.0+dfsg-3.1~exp1.dsc: no acceptable signature found dpkg-source: info: extracting macromoleculebuilder in macromoleculebuilder-4.0.0+dfsg dpkg-source: info: unpacking macromoleculebuilder_4.0.0+dfsg.orig.tar.xz dpkg-source: info: unpacking macromoleculebuilder_4.0.0+dfsg-3.1~exp1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying drop-CMAKE_CXX_STANDARD.patch dpkg-source: info: applying 96da444290ab1af4385013c566079d381d8051b4.patch dpkg-source: info: applying bf1ab1ebf49bb9e48f4f133e155f9315cc37079d.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/29190/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='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='experimental' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='67996719e8c1472687661cbfc7ced220' 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='29190' 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.4sqcBx3b/pbuilderrc_Sgge --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.4sqcBx3b/b1 --logfile b1/build.log macromoleculebuilder_4.0.0+dfsg-3.1~exp1.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt32a 6.1.0-27-armmp-lpae #1 SMP Debian 6.1.115-1 (2024-11-01) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/29190/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: armhf 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: asciidoc-base, cmake, debhelper-compat (= 13), docbook-xml, gemmi-dev (>= 0.6.2+ds-2), libopenmm-dev, libseqan2-dev, libsimbody-dev, libsimtkmolmodel-dev (>= 3.1.0), libsimtkmolmodel-plugins, libstb-dev, tao-pegtl-dev, zlib1g-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 ... 19686 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 asciidoc-base; however: Package asciidoc-base 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 docbook-xml; however: Package docbook-xml is not installed. pbuilder-satisfydepends-dummy depends on gemmi-dev (>= 0.6.2+ds-2); however: Package gemmi-dev is not installed. pbuilder-satisfydepends-dummy depends on libopenmm-dev; however: Package libopenmm-dev is not installed. pbuilder-satisfydepends-dummy depends on libseqan2-dev; however: Package libseqan2-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimbody-dev; however: Package libsimbody-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimtkmolmodel-dev (>= 3.1.0); however: Package libsimtkmolmodel-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimtkmolmodel-plugins; however: Package libsimtkmolmodel-plugins is not installed. pbuilder-satisfydepends-dummy depends on libstb-dev; however: Package libstb-dev is not installed. pbuilder-satisfydepends-dummy depends on tao-pegtl-dev; however: Package tao-pegtl-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-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: asciidoc-base{a} asciidoc-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} docbook-xml{a} docbook-xsl{a} dwz{a} file{a} freeglut3-dev{a} gemmi-dev{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libblas-dev{a} libblas3{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libegl-dev{a} libegl-mesa0{a} libegl1{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgbm1{a} libgfortran5{a} libgl-dev{a} libgl1{a} libgl1-mesa-dev{a} libgl1-mesa-dri{a} libglapi-mesa{a} libgles-dev{a} libgles1{a} libgles2{a} libglu1-mesa{a} libglu1-mesa-dev{a} libglut-dev{a} libglut3.12{a} libglvnd-core-dev{a} libglvnd-dev{a} libglvnd0{a} libglx-dev{a} libglx-mesa0{a} libglx0{a} libgssapi-krb5-2{a} libice-dev{a} libice6{a} libicu72{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} libllvm19{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnsl2{a} libopengl-dev{a} libopengl0{a} libopenmm-dev{a} libopenmm8.1{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libseqan2-dev{a} libsimbody-dev{a} libsimbody3.7{a} libsimtkmolmodel-dev{a} libsimtkmolmodel-plugins{a} libsimtkmolmodel3.1t64{a} libsm-dev{a} libsm6{a} libssh2-1t64{a} libstb-dev{a} libstb0t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libvulkan1{a} libwayland-client0{a} libwayland-server0{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcb1-dev{a} libxdmcp-dev{a} libxdmcp6{a} libxext-dev{a} libxext6{a} libxfixes-dev{a} libxfixes3{a} libxi-dev{a} libxi6{a} libxml2{a} libxml2-utils{a} libxmu-dev{a} libxmu-headers{a} libxmu6{a} libxshmfence1{a} libxslt1.1{a} libxt-dev{a} libxt6t64{a} libxxf86vm1{a} libz3-4{a} m4{a} man-db{a} media-types{a} mesa-libgallium{a} netbase{a} po-debconf{a} procps{a} python3{a} python3-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sgml-data{a} tao-pegtl-dev{a} tzdata{a} uuid-dev{a} x11-common{a} x11proto-dev{a} xml-core{a} xorg-sgml-doctools{a} xsltproc{a} xtrans-dev{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libssl3 linux-sysctl-defaults lynx mesa-vulkan-drivers psmisc publicsuffix wget xmlto 0 packages upgraded, 174 newly installed, 0 to remove and 0 not upgraded. Need to get 102 MB of archives. After unpacking 413 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf libpython3.12-minimal armhf 3.12.7-3 [800 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf python3.12-minimal armhf 3.12.7-3 [1808 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf python3-minimal armhf 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.1-1+b1 [22.3 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B] Get: 12 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB] Get: 14 http://deb.debian.org/debian unstable/main armhf libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf libtirpc3t64 armhf 1.3.4+ds-1.3+b1 [71.3 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf libnsl2 armhf 1.3.0-3+b3 [35.0 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf libreadline8t64 armhf 8.2-5 [146 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf libpython3.12-stdlib armhf 3.12.7-3 [1819 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf python3.12 armhf 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf libpython3-stdlib armhf 3.12.7-1 [9712 B] Get: 22 http://deb.debian.org/debian unstable/main armhf python3 armhf 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf sgml-base all 1.31 [15.4 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf libproc2-0 armhf 2:4.0.4-6 [56.0 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf procps armhf 2:4.0.4-6 [864 kB] Get: 26 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.22.5-2 [195 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-5 [1091 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.2-11 [83.6 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf asciidoc-common all 10.2.1-1 [104 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf xml-core all 0.19 [20.1 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf docbook-xsl all 1.79.2+dfsg-7 [1221 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-5+b1 [9088 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf libxml2-utils armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [98.3 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf libxslt1.1 armhf 1.1.35-1.1+b1 [212 kB] Get: 43 http://deb.debian.org/debian unstable/main armhf xsltproc armhf 1.1.35-1.1+b1 [115 kB] Get: 44 http://deb.debian.org/debian unstable/main armhf asciidoc-base all 10.2.1-1 [84.9 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 46 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 48 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf autopoint all 0.22.5-2 [723 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf cmake-data all 3.31.0-1 [2265 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf libarchive13t64 armhf 3.7.4-1.1 [306 kB] Get: 52 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b6 [282 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-8 [18.2 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-8 [50.2 kB] Get: 55 http://deb.debian.org/debian unstable/main armhf libldap-2.5-0 armhf 2.5.18+dfsg-3+b1 [163 kB] Get: 56 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB] Get: 57 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1+b1 [55.8 kB] Get: 58 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b5 [53.2 kB] Get: 59 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.1-1 [227 kB] Get: 60 http://deb.debian.org/debian unstable/main armhf libcurl4t64 armhf 8.11.0-1 [303 kB] Get: 61 http://deb.debian.org/debian unstable/main armhf libjsoncpp26 armhf 1.9.6-3 [69.9 kB] Get: 62 http://deb.debian.org/debian unstable/main armhf librhash1 armhf 1.4.5-1 [143 kB] Get: 63 http://deb.debian.org/debian unstable/main armhf libuv1t64 armhf 1.48.0-7 [134 kB] Get: 64 http://deb.debian.org/debian unstable/main armhf cmake armhf 3.31.0-1 [5744 kB] Get: 65 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.20 [89.7 kB] Get: 66 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-8 [517 kB] Get: 67 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 68 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 69 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 70 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 71 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 72 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 73 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.22.5-2 [1485 kB] Get: 74 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 75 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 76 http://deb.debian.org/debian unstable/main armhf debhelper all 13.20 [915 kB] Get: 77 http://deb.debian.org/debian unstable/main armhf sgml-data all 2.0.11+nmu1 [179 kB] Get: 78 http://deb.debian.org/debian unstable/main armhf docbook-xml all 4.5-13 [77.4 kB] Get: 79 http://deb.debian.org/debian unstable/main armhf libglvnd0 armhf 1.7.0-1+b2 [51.8 kB] Get: 80 http://deb.debian.org/debian unstable/main armhf libxau6 armhf 1:1.0.11-1 [19.7 kB] Get: 81 http://deb.debian.org/debian unstable/main armhf libxdmcp6 armhf 1:1.1.5-1 [26.4 kB] Get: 82 http://deb.debian.org/debian unstable/main armhf libxcb1 armhf 1.17.0-2+b1 [140 kB] Get: 83 http://deb.debian.org/debian unstable/main armhf libx11-data all 2:1.8.10-2 [337 kB] Get: 84 http://deb.debian.org/debian unstable/main armhf libx11-6 armhf 2:1.8.10-2 [750 kB] Get: 85 http://deb.debian.org/debian unstable/main armhf libdrm-common all 2.4.123-1 [8084 B] Get: 86 http://deb.debian.org/debian unstable/main armhf libdrm2 armhf 2.4.123-1 [34.1 kB] Get: 87 http://deb.debian.org/debian unstable/main armhf libglapi-mesa armhf 24.2.7-1 [44.9 kB] Get: 88 http://deb.debian.org/debian unstable/main armhf libx11-xcb1 armhf 2:1.8.10-2 [241 kB] Get: 89 http://deb.debian.org/debian unstable/main armhf libxcb-dri2-0 armhf 1.17.0-2+b1 [106 kB] Get: 90 http://deb.debian.org/debian unstable/main armhf libxcb-dri3-0 armhf 1.17.0-2+b1 [107 kB] Get: 91 http://deb.debian.org/debian unstable/main armhf libxcb-glx0 armhf 1.17.0-2+b1 [120 kB] Get: 92 http://deb.debian.org/debian unstable/main armhf libxcb-present0 armhf 1.17.0-2+b1 [105 kB] Get: 93 http://deb.debian.org/debian unstable/main armhf libxcb-randr0 armhf 1.17.0-2+b1 [116 kB] Get: 94 http://deb.debian.org/debian unstable/main armhf libxcb-shm0 armhf 1.17.0-2+b1 [105 kB] Get: 95 http://deb.debian.org/debian unstable/main armhf libxcb-sync1 armhf 1.17.0-2+b1 [108 kB] Get: 96 http://deb.debian.org/debian unstable/main armhf libxcb-xfixes0 armhf 1.17.0-2+b1 [109 kB] Get: 97 http://deb.debian.org/debian unstable/main armhf libxext6 armhf 2:1.3.4-1+b2 [45.2 kB] Get: 98 http://deb.debian.org/debian unstable/main armhf libxfixes3 armhf 1:6.0.0-2+b2 [18.6 kB] Get: 99 http://deb.debian.org/debian unstable/main armhf libxshmfence1 armhf 1.3-1+b2 [8628 B] Get: 100 http://deb.debian.org/debian unstable/main armhf libxxf86vm1 armhf 1:1.1.4-1+b3 [18.1 kB] Get: 101 http://deb.debian.org/debian unstable/main armhf libdrm-amdgpu1 armhf 2.4.123-1 [20.4 kB] Get: 102 http://deb.debian.org/debian unstable/main armhf libdrm-radeon1 armhf 2.4.123-1 [19.6 kB] Get: 103 http://deb.debian.org/debian unstable/main armhf libedit2 armhf 3.1-20240808-1 [77.9 kB] Get: 104 http://deb.debian.org/debian unstable/main armhf libz3-4 armhf 4.13.3-1 [7252 kB] Get: 105 http://deb.debian.org/debian unstable/main armhf libllvm19 armhf 1:19.1.3-2 [23.8 MB] Get: 106 http://deb.debian.org/debian unstable/main armhf libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 107 http://deb.debian.org/debian unstable/main armhf libsensors5 armhf 1:3.6.0-10+b1 [32.3 kB] Get: 108 http://deb.debian.org/debian unstable/main armhf mesa-libgallium armhf 24.2.7-1 [7094 kB] Get: 109 http://deb.debian.org/debian unstable/main armhf libvulkan1 armhf 1.3.296.0-1 [103 kB] Get: 110 http://deb.debian.org/debian unstable/main armhf libwayland-server0 armhf 1.23.0-1+b1 [27.9 kB] Get: 111 http://deb.debian.org/debian unstable/main armhf libgbm1 armhf 24.2.7-1 [39.0 kB] Get: 112 http://deb.debian.org/debian unstable/main armhf libgl1-mesa-dri armhf 24.2.7-1 [41.0 kB] Get: 113 http://deb.debian.org/debian unstable/main armhf libglx-mesa0 armhf 24.2.7-1 [132 kB] Get: 114 http://deb.debian.org/debian unstable/main armhf libglx0 armhf 1.7.0-1+b2 [32.6 kB] Get: 115 http://deb.debian.org/debian unstable/main armhf libgl1 armhf 1.7.0-1+b2 [88.2 kB] Get: 116 http://deb.debian.org/debian unstable/main armhf libxi6 armhf 2:1.8.2-1 [73.6 kB] Get: 117 http://deb.debian.org/debian unstable/main armhf libglut3.12 armhf 3.4.0-1+b2 [125 kB] Get: 118 http://deb.debian.org/debian unstable/main armhf xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB] Get: 119 http://deb.debian.org/debian unstable/main armhf x11proto-dev all 2024.1-1 [603 kB] Get: 120 http://deb.debian.org/debian unstable/main armhf libxau-dev armhf 1:1.0.11-1 [23.0 kB] Get: 121 http://deb.debian.org/debian unstable/main armhf libxdmcp-dev armhf 1:1.1.5-1 [42.9 kB] Get: 122 http://deb.debian.org/debian unstable/main armhf xtrans-dev all 1.4.0-1 [98.7 kB] Get: 123 http://deb.debian.org/debian unstable/main armhf libxcb1-dev armhf 1.17.0-2+b1 [180 kB] Get: 124 http://deb.debian.org/debian unstable/main armhf libx11-dev armhf 2:1.8.10-2 [825 kB] Get: 125 http://deb.debian.org/debian unstable/main armhf libglx-dev armhf 1.7.0-1+b2 [15.8 kB] Get: 126 http://deb.debian.org/debian unstable/main armhf libgl-dev armhf 1.7.0-1+b2 [101 kB] Get: 127 http://deb.debian.org/debian unstable/main armhf libglvnd-core-dev armhf 1.7.0-1+b2 [13.4 kB] Get: 128 http://deb.debian.org/debian unstable/main armhf libwayland-client0 armhf 1.23.0-1+b1 [21.2 kB] Get: 129 http://deb.debian.org/debian unstable/main armhf libegl-mesa0 armhf 24.2.7-1 [110 kB] Get: 130 http://deb.debian.org/debian unstable/main armhf libegl1 armhf 1.7.0-1+b2 [29.1 kB] Get: 131 http://deb.debian.org/debian unstable/main armhf libegl-dev armhf 1.7.0-1+b2 [19.5 kB] Get: 132 http://deb.debian.org/debian unstable/main armhf libgles1 armhf 1.7.0-1+b2 [12.2 kB] Get: 133 http://deb.debian.org/debian unstable/main armhf libgles2 armhf 1.7.0-1+b2 [17.7 kB] Get: 134 http://deb.debian.org/debian unstable/main armhf libgles-dev armhf 1.7.0-1+b2 [50.8 kB] Get: 135 http://deb.debian.org/debian unstable/main armhf libopengl0 armhf 1.7.0-1+b2 [32.1 kB] Get: 136 http://deb.debian.org/debian unstable/main armhf libopengl-dev armhf 1.7.0-1+b2 [5372 B] Get: 137 http://deb.debian.org/debian unstable/main armhf libglvnd-dev armhf 1.7.0-1+b2 [5140 B] Get: 138 http://deb.debian.org/debian unstable/main armhf libgl1-mesa-dev armhf 24.2.7-1 [18.5 kB] Get: 139 http://deb.debian.org/debian unstable/main armhf libglu1-mesa armhf 9.0.2-1.1+b2 [141 kB] Get: 140 http://deb.debian.org/debian unstable/main armhf libglu1-mesa-dev armhf 9.0.2-1.1+b2 [181 kB] Get: 141 http://deb.debian.org/debian unstable/main armhf libxext-dev armhf 2:1.3.4-1+b2 [100 kB] Get: 142 http://deb.debian.org/debian unstable/main armhf x11-common all 1:7.7+23.1 [216 kB] Get: 143 http://deb.debian.org/debian unstable/main armhf libice6 armhf 2:1.1.1-1 [58.5 kB] Get: 144 http://deb.debian.org/debian unstable/main armhf libsm6 armhf 2:1.2.4-1 [33.5 kB] Get: 145 http://deb.debian.org/debian unstable/main armhf libxt6t64 armhf 1:1.2.1-1.2+b1 [160 kB] Get: 146 http://deb.debian.org/debian unstable/main armhf libice-dev armhf 2:1.1.1-1 [69.0 kB] Get: 147 http://deb.debian.org/debian unstable/main armhf uuid-dev armhf 2.40.2-11 [45.6 kB] Get: 148 http://deb.debian.org/debian unstable/main armhf libsm-dev armhf 2:1.2.4-1 [36.7 kB] Get: 149 http://deb.debian.org/debian unstable/main armhf libxt-dev armhf 1:1.2.1-1.2+b1 [386 kB] Get: 150 http://deb.debian.org/debian unstable/main armhf libglut-dev armhf 3.4.0-1+b2 [153 kB] Get: 151 http://deb.debian.org/debian unstable/main armhf freeglut3-dev armhf 3.4.0-1+b2 [53.4 kB] Get: 152 http://deb.debian.org/debian unstable/main armhf tao-pegtl-dev all 3.2.7-1 [69.4 kB] Get: 153 http://deb.debian.org/debian unstable/main armhf gemmi-dev armhf 0.6.5+ds-2 [1093 kB] Get: 154 http://deb.debian.org/debian unstable/main armhf libblas3 armhf 3.12.0-4 [111 kB] Get: 155 http://deb.debian.org/debian unstable/main armhf libblas-dev armhf 3.12.0-4 [121 kB] Get: 156 http://deb.debian.org/debian unstable/main armhf libgfortran5 armhf 14.2.0-8 [263 kB] Get: 157 http://deb.debian.org/debian unstable/main armhf liblapack3 armhf 3.12.0-4 [1828 kB] Get: 158 http://deb.debian.org/debian unstable/main armhf liblapack-dev armhf 3.12.0-4 [1930 kB] Get: 159 http://deb.debian.org/debian unstable/main armhf libopenmm8.1 armhf 8.1.2+dfsg-1+b1 [882 kB] Get: 160 http://deb.debian.org/debian unstable/main armhf libopenmm-dev armhf 8.1.2+dfsg-1+b1 [327 kB] Get: 161 http://deb.debian.org/debian unstable/main armhf libseqan2-dev all 2.4.0+dfsg-16 [1216 kB] Get: 162 http://deb.debian.org/debian unstable/main armhf libxfixes-dev armhf 1:6.0.0-2+b2 [20.9 kB] Get: 163 http://deb.debian.org/debian unstable/main armhf libxi-dev armhf 2:1.8.2-1 [235 kB] Get: 164 http://deb.debian.org/debian unstable/main armhf libxmu6 armhf 2:1.1.3-3+b3 [51.2 kB] Get: 165 http://deb.debian.org/debian unstable/main armhf libxmu-headers all 2:1.1.3-3 [68.5 kB] Get: 166 http://deb.debian.org/debian unstable/main armhf libxmu-dev armhf 2:1.1.3-3+b3 [57.8 kB] Get: 167 http://deb.debian.org/debian unstable/main armhf libsimbody3.7 armhf 3.7+dfsg-3+b1 [2830 kB] Get: 168 http://deb.debian.org/debian unstable/main armhf libsimbody-dev armhf 3.7+dfsg-3+b1 [2727 kB] Get: 169 http://deb.debian.org/debian unstable/main armhf libsimtkmolmodel3.1t64 armhf 3.1.0-4.1+b3 [596 kB] Get: 170 http://deb.debian.org/debian unstable/main armhf libsimtkmolmodel-dev armhf 3.1.0-4.1+b3 [1864 kB] Get: 171 http://deb.debian.org/debian unstable/main armhf libsimtkmolmodel-plugins armhf 3.1.0-4.1+b3 [16.6 kB] Get: 172 http://deb.debian.org/debian unstable/main armhf libstb0t64 armhf 0.0~git20240715.f7f20f39fe4f+ds-1 [180 kB] Get: 173 http://deb.debian.org/debian unstable/main armhf libstb-dev armhf 0.0~git20240715.f7f20f39fe4f+ds-1 [615 kB] Get: 174 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB] Fetched 102 MB in 7s (14.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:armhf. (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 ... 19686 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.7-3) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.4-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_armhf.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:armhf (3.12.7-3) ... Setting up libexpat1:armhf (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (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 ... 20006 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_armhf.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../04-libkrb5support0_1.21.3-3_armhf.deb ... Unpacking libkrb5support0:armhf (1.21.3-3) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_armhf.deb ... Unpacking libcom-err2:armhf (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../06-libk5crypto3_1.21.3-3_armhf.deb ... Unpacking libk5crypto3:armhf (1.21.3-3) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../07-libkeyutils1_1.6.3-4_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-4) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../08-libkrb5-3_1.21.3-3_armhf.deb ... Unpacking libkrb5-3:armhf (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:armhf. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:armhf. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_armhf.deb ... Unpacking libnsl2:armhf (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:armhf. Preparing to unpack .../14-libreadline8t64_8.2-5_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:armhf. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_armhf.deb ... Unpacking libpython3.12-stdlib:armhf (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_armhf.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:armhf. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_armhf.deb ... Unpacking libpython3-stdlib:armhf (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (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 ... 21068 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_armhf.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package libproc2-0:armhf. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-6_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-6_armhf.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../005-libmagic-mgc_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../006-libmagic1t64_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../007-file_1%3a5.45-3+b1_armhf.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../008-gettext-base_0.22.5-2_armhf.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../009-libuchardet0_0.0.8-1+b2_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../010-groff-base_1.23.0-5_armhf.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../011-bsdextrautils_2.40.2-11_armhf.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../012-libpipeline1_1.5.8-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../013-man-db_2.13.0-1_armhf.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package asciidoc-common. Preparing to unpack .../014-asciidoc-common_10.2.1-1_all.deb ... Unpacking asciidoc-common (10.2.1-1) ... Selecting previously unselected package xml-core. Preparing to unpack .../015-xml-core_0.19_all.deb ... Unpacking xml-core (0.19) ... Selecting previously unselected package docbook-xsl. Preparing to unpack .../016-docbook-xsl_1.79.2+dfsg-7_all.deb ... Unpacking docbook-xsl (1.79.2+dfsg-7) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../017-libicu72_72.1-5+b1_armhf.deb ... Unpacking libicu72:armhf (72.1-5+b1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../018-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_armhf.deb ... Unpacking libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package libxml2-utils. Preparing to unpack .../019-libxml2-utils_2.12.7+dfsg+really2.9.14-0.2+b1_armhf.deb ... Unpacking libxml2-utils (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package libxslt1.1:armhf. Preparing to unpack .../020-libxslt1.1_1.1.35-1.1+b1_armhf.deb ... Unpacking libxslt1.1:armhf (1.1.35-1.1+b1) ... Selecting previously unselected package xsltproc. Preparing to unpack .../021-xsltproc_1.1.35-1.1+b1_armhf.deb ... Unpacking xsltproc (1.1.35-1.1+b1) ... Selecting previously unselected package asciidoc-base. Preparing to unpack .../022-asciidoc-base_10.2.1-1_all.deb ... Unpacking asciidoc-base (10.2.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../023-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../024-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../025-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../026-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../027-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package cmake-data. Preparing to unpack .../028-cmake-data_3.31.0-1_all.deb ... Unpacking cmake-data (3.31.0-1) ... Selecting previously unselected package libarchive13t64:armhf. Preparing to unpack .../029-libarchive13t64_3.7.4-1.1_armhf.deb ... Unpacking libarchive13t64:armhf (3.7.4-1.1) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../030-libbrotli1_1.1.0-2+b6_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2+b6) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../031-libsasl2-modules-db_2.1.28+dfsg1-8_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../032-libsasl2-2_2.1.28+dfsg1-8_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:armhf. Preparing to unpack .../033-libldap-2.5-0_2.5.18+dfsg-3+b1_armhf.deb ... Unpacking libldap-2.5-0:armhf (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../034-libnghttp2-14_1.64.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.64.0-1) ... Selecting previously unselected package libpsl5t64:armhf. Preparing to unpack .../035-libpsl5t64_0.21.2-1.1+b1_armhf.deb ... Unpacking libpsl5t64:armhf (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../036-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:armhf. Preparing to unpack .../037-libssh2-1t64_1.11.1-1_armhf.deb ... Unpacking libssh2-1t64:armhf (1.11.1-1) ... Selecting previously unselected package libcurl4t64:armhf. Preparing to unpack .../038-libcurl4t64_8.11.0-1_armhf.deb ... Unpacking libcurl4t64:armhf (8.11.0-1) ... Selecting previously unselected package libjsoncpp26:armhf. Preparing to unpack .../039-libjsoncpp26_1.9.6-3_armhf.deb ... Unpacking libjsoncpp26:armhf (1.9.6-3) ... Selecting previously unselected package librhash1:armhf. Preparing to unpack .../040-librhash1_1.4.5-1_armhf.deb ... Unpacking librhash1:armhf (1.4.5-1) ... Selecting previously unselected package libuv1t64:armhf. Preparing to unpack .../041-libuv1t64_1.48.0-7_armhf.deb ... Unpacking libuv1t64:armhf (1.48.0-7) ... Selecting previously unselected package cmake. Preparing to unpack .../042-cmake_3.31.0-1_armhf.deb ... Unpacking cmake (3.31.0-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../043-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../044-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../045-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../046-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../047-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../048-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:armhf. Preparing to unpack .../049-libelf1t64_0.192-4_armhf.deb ... Unpacking libelf1t64:armhf (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../050-dwz_0.15-1+b2_armhf.deb ... Unpacking dwz (0.15-1+b2) ... Selecting previously unselected package gettext. Preparing to unpack .../051-gettext_0.22.5-2_armhf.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../052-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../053-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../054-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package sgml-data. Preparing to unpack .../055-sgml-data_2.0.11+nmu1_all.deb ... Unpacking sgml-data (2.0.11+nmu1) ... Selecting previously unselected package docbook-xml. Preparing to unpack .../056-docbook-xml_4.5-13_all.deb ... Unpacking docbook-xml (4.5-13) ... Selecting previously unselected package libglvnd0:armhf. Preparing to unpack .../057-libglvnd0_1.7.0-1+b2_armhf.deb ... Unpacking libglvnd0:armhf (1.7.0-1+b2) ... Selecting previously unselected package libxau6:armhf. Preparing to unpack .../058-libxau6_1%3a1.0.11-1_armhf.deb ... Unpacking libxau6:armhf (1:1.0.11-1) ... Selecting previously unselected package libxdmcp6:armhf. Preparing to unpack .../059-libxdmcp6_1%3a1.1.5-1_armhf.deb ... Unpacking libxdmcp6:armhf (1:1.1.5-1) ... Selecting previously unselected package libxcb1:armhf. Preparing to unpack .../060-libxcb1_1.17.0-2+b1_armhf.deb ... Unpacking libxcb1:armhf (1.17.0-2+b1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../061-libx11-data_2%3a1.8.10-2_all.deb ... Unpacking libx11-data (2:1.8.10-2) ... Selecting previously unselected package libx11-6:armhf. Preparing to unpack .../062-libx11-6_2%3a1.8.10-2_armhf.deb ... Unpacking libx11-6:armhf (2:1.8.10-2) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../063-libdrm-common_2.4.123-1_all.deb ... Unpacking libdrm-common (2.4.123-1) ... Selecting previously unselected package libdrm2:armhf. Preparing to unpack .../064-libdrm2_2.4.123-1_armhf.deb ... Unpacking libdrm2:armhf (2.4.123-1) ... Selecting previously unselected package libglapi-mesa:armhf. Preparing to unpack .../065-libglapi-mesa_24.2.7-1_armhf.deb ... Unpacking libglapi-mesa:armhf (24.2.7-1) ... Selecting previously unselected package libx11-xcb1:armhf. Preparing to unpack .../066-libx11-xcb1_2%3a1.8.10-2_armhf.deb ... Unpacking libx11-xcb1:armhf (2:1.8.10-2) ... Selecting previously unselected package libxcb-dri2-0:armhf. Preparing to unpack .../067-libxcb-dri2-0_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-dri2-0:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxcb-dri3-0:armhf. Preparing to unpack .../068-libxcb-dri3-0_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-dri3-0:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxcb-glx0:armhf. Preparing to unpack .../069-libxcb-glx0_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-glx0:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxcb-present0:armhf. Preparing to unpack .../070-libxcb-present0_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-present0:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxcb-randr0:armhf. Preparing to unpack .../071-libxcb-randr0_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-randr0:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxcb-shm0:armhf. Preparing to unpack .../072-libxcb-shm0_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-shm0:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxcb-sync1:armhf. Preparing to unpack .../073-libxcb-sync1_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-sync1:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxcb-xfixes0:armhf. Preparing to unpack .../074-libxcb-xfixes0_1.17.0-2+b1_armhf.deb ... Unpacking libxcb-xfixes0:armhf (1.17.0-2+b1) ... Selecting previously unselected package libxext6:armhf. Preparing to unpack .../075-libxext6_2%3a1.3.4-1+b2_armhf.deb ... Unpacking libxext6:armhf (2:1.3.4-1+b2) ... Selecting previously unselected package libxfixes3:armhf. Preparing to unpack .../076-libxfixes3_1%3a6.0.0-2+b2_armhf.deb ... Unpacking libxfixes3:armhf (1:6.0.0-2+b2) ... Selecting previously unselected package libxshmfence1:armhf. Preparing to unpack .../077-libxshmfence1_1.3-1+b2_armhf.deb ... Unpacking libxshmfence1:armhf (1.3-1+b2) ... Selecting previously unselected package libxxf86vm1:armhf. Preparing to unpack .../078-libxxf86vm1_1%3a1.1.4-1+b3_armhf.deb ... Unpacking libxxf86vm1:armhf (1:1.1.4-1+b3) ... Selecting previously unselected package libdrm-amdgpu1:armhf. Preparing to unpack .../079-libdrm-amdgpu1_2.4.123-1_armhf.deb ... Unpacking libdrm-amdgpu1:armhf (2.4.123-1) ... Selecting previously unselected package libdrm-radeon1:armhf. Preparing to unpack .../080-libdrm-radeon1_2.4.123-1_armhf.deb ... Unpacking libdrm-radeon1:armhf (2.4.123-1) ... Selecting previously unselected package libedit2:armhf. Preparing to unpack .../081-libedit2_3.1-20240808-1_armhf.deb ... Unpacking libedit2:armhf (3.1-20240808-1) ... Selecting previously unselected package libz3-4:armhf. Preparing to unpack .../082-libz3-4_4.13.3-1_armhf.deb ... Unpacking libz3-4:armhf (4.13.3-1) ... Selecting previously unselected package libllvm19:armhf. Preparing to unpack .../083-libllvm19_1%3a19.1.3-2_armhf.deb ... Unpacking libllvm19:armhf (1:19.1.3-2) ... Selecting previously unselected package libsensors-config. Preparing to unpack .../084-libsensors-config_1%3a3.6.0-10_all.deb ... Unpacking libsensors-config (1:3.6.0-10) ... Selecting previously unselected package libsensors5:armhf. Preparing to unpack .../085-libsensors5_1%3a3.6.0-10+b1_armhf.deb ... Unpacking libsensors5:armhf (1:3.6.0-10+b1) ... Selecting previously unselected package mesa-libgallium:armhf. Preparing to unpack .../086-mesa-libgallium_24.2.7-1_armhf.deb ... Unpacking mesa-libgallium:armhf (24.2.7-1) ... Selecting previously unselected package libvulkan1:armhf. Preparing to unpack .../087-libvulkan1_1.3.296.0-1_armhf.deb ... Unpacking libvulkan1:armhf (1.3.296.0-1) ... Selecting previously unselected package libwayland-server0:armhf. Preparing to unpack .../088-libwayland-server0_1.23.0-1+b1_armhf.deb ... Unpacking libwayland-server0:armhf (1.23.0-1+b1) ... Selecting previously unselected package libgbm1:armhf. Preparing to unpack .../089-libgbm1_24.2.7-1_armhf.deb ... Unpacking libgbm1:armhf (24.2.7-1) ... Selecting previously unselected package libgl1-mesa-dri:armhf. Preparing to unpack .../090-libgl1-mesa-dri_24.2.7-1_armhf.deb ... Unpacking libgl1-mesa-dri:armhf (24.2.7-1) ... Selecting previously unselected package libglx-mesa0:armhf. Preparing to unpack .../091-libglx-mesa0_24.2.7-1_armhf.deb ... Unpacking libglx-mesa0:armhf (24.2.7-1) ... Selecting previously unselected package libglx0:armhf. Preparing to unpack .../092-libglx0_1.7.0-1+b2_armhf.deb ... Unpacking libglx0:armhf (1.7.0-1+b2) ... Selecting previously unselected package libgl1:armhf. Preparing to unpack .../093-libgl1_1.7.0-1+b2_armhf.deb ... Unpacking libgl1:armhf (1.7.0-1+b2) ... Selecting previously unselected package libxi6:armhf. Preparing to unpack .../094-libxi6_2%3a1.8.2-1_armhf.deb ... Unpacking libxi6:armhf (2:1.8.2-1) ... Selecting previously unselected package libglut3.12:armhf. Preparing to unpack .../095-libglut3.12_3.4.0-1+b2_armhf.deb ... Unpacking libglut3.12:armhf (3.4.0-1+b2) ... Selecting previously unselected package xorg-sgml-doctools. Preparing to unpack .../096-xorg-sgml-doctools_1%3a1.11-1.1_all.deb ... Unpacking xorg-sgml-doctools (1:1.11-1.1) ... Selecting previously unselected package x11proto-dev. Preparing to unpack .../097-x11proto-dev_2024.1-1_all.deb ... Unpacking x11proto-dev (2024.1-1) ... Selecting previously unselected package libxau-dev:armhf. Preparing to unpack .../098-libxau-dev_1%3a1.0.11-1_armhf.deb ... Unpacking libxau-dev:armhf (1:1.0.11-1) ... Selecting previously unselected package libxdmcp-dev:armhf. Preparing to unpack .../099-libxdmcp-dev_1%3a1.1.5-1_armhf.deb ... Unpacking libxdmcp-dev:armhf (1:1.1.5-1) ... Selecting previously unselected package xtrans-dev. Preparing to unpack .../100-xtrans-dev_1.4.0-1_all.deb ... Unpacking xtrans-dev (1.4.0-1) ... Selecting previously unselected package libxcb1-dev:armhf. Preparing to unpack .../101-libxcb1-dev_1.17.0-2+b1_armhf.deb ... Unpacking libxcb1-dev:armhf (1.17.0-2+b1) ... Selecting previously unselected package libx11-dev:armhf. Preparing to unpack .../102-libx11-dev_2%3a1.8.10-2_armhf.deb ... Unpacking libx11-dev:armhf (2:1.8.10-2) ... Selecting previously unselected package libglx-dev:armhf. Preparing to unpack .../103-libglx-dev_1.7.0-1+b2_armhf.deb ... Unpacking libglx-dev:armhf (1.7.0-1+b2) ... Selecting previously unselected package libgl-dev:armhf. Preparing to unpack .../104-libgl-dev_1.7.0-1+b2_armhf.deb ... Unpacking libgl-dev:armhf (1.7.0-1+b2) ... Selecting previously unselected package libglvnd-core-dev:armhf. Preparing to unpack .../105-libglvnd-core-dev_1.7.0-1+b2_armhf.deb ... Unpacking libglvnd-core-dev:armhf (1.7.0-1+b2) ... Selecting previously unselected package libwayland-client0:armhf. Preparing to unpack .../106-libwayland-client0_1.23.0-1+b1_armhf.deb ... Unpacking libwayland-client0:armhf (1.23.0-1+b1) ... Selecting previously unselected package libegl-mesa0:armhf. Preparing to unpack .../107-libegl-mesa0_24.2.7-1_armhf.deb ... Unpacking libegl-mesa0:armhf (24.2.7-1) ... Selecting previously unselected package libegl1:armhf. Preparing to unpack .../108-libegl1_1.7.0-1+b2_armhf.deb ... Unpacking libegl1:armhf (1.7.0-1+b2) ... Selecting previously unselected package libegl-dev:armhf. Preparing to unpack .../109-libegl-dev_1.7.0-1+b2_armhf.deb ... Unpacking libegl-dev:armhf (1.7.0-1+b2) ... Selecting previously unselected package libgles1:armhf. Preparing to unpack .../110-libgles1_1.7.0-1+b2_armhf.deb ... Unpacking libgles1:armhf (1.7.0-1+b2) ... Selecting previously unselected package libgles2:armhf. Preparing to unpack .../111-libgles2_1.7.0-1+b2_armhf.deb ... Unpacking libgles2:armhf (1.7.0-1+b2) ... Selecting previously unselected package libgles-dev:armhf. Preparing to unpack .../112-libgles-dev_1.7.0-1+b2_armhf.deb ... Unpacking libgles-dev:armhf (1.7.0-1+b2) ... Selecting previously unselected package libopengl0:armhf. Preparing to unpack .../113-libopengl0_1.7.0-1+b2_armhf.deb ... Unpacking libopengl0:armhf (1.7.0-1+b2) ... Selecting previously unselected package libopengl-dev:armhf. Preparing to unpack .../114-libopengl-dev_1.7.0-1+b2_armhf.deb ... Unpacking libopengl-dev:armhf (1.7.0-1+b2) ... Selecting previously unselected package libglvnd-dev:armhf. Preparing to unpack .../115-libglvnd-dev_1.7.0-1+b2_armhf.deb ... Unpacking libglvnd-dev:armhf (1.7.0-1+b2) ... Selecting previously unselected package libgl1-mesa-dev:armhf. Preparing to unpack .../116-libgl1-mesa-dev_24.2.7-1_armhf.deb ... Unpacking libgl1-mesa-dev:armhf (24.2.7-1) ... Selecting previously unselected package libglu1-mesa:armhf. Preparing to unpack .../117-libglu1-mesa_9.0.2-1.1+b2_armhf.deb ... Unpacking libglu1-mesa:armhf (9.0.2-1.1+b2) ... Selecting previously unselected package libglu1-mesa-dev:armhf. Preparing to unpack .../118-libglu1-mesa-dev_9.0.2-1.1+b2_armhf.deb ... Unpacking libglu1-mesa-dev:armhf (9.0.2-1.1+b2) ... Selecting previously unselected package libxext-dev:armhf. Preparing to unpack .../119-libxext-dev_2%3a1.3.4-1+b2_armhf.deb ... Unpacking libxext-dev:armhf (2:1.3.4-1+b2) ... Selecting previously unselected package x11-common. Preparing to unpack .../120-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package libice6:armhf. Preparing to unpack .../121-libice6_2%3a1.1.1-1_armhf.deb ... Unpacking libice6:armhf (2:1.1.1-1) ... Selecting previously unselected package libsm6:armhf. Preparing to unpack .../122-libsm6_2%3a1.2.4-1_armhf.deb ... Unpacking libsm6:armhf (2:1.2.4-1) ... Selecting previously unselected package libxt6t64:armhf. Preparing to unpack .../123-libxt6t64_1%3a1.2.1-1.2+b1_armhf.deb ... Unpacking libxt6t64:armhf (1:1.2.1-1.2+b1) ... Selecting previously unselected package libice-dev:armhf. Preparing to unpack .../124-libice-dev_2%3a1.1.1-1_armhf.deb ... Unpacking libice-dev:armhf (2:1.1.1-1) ... Selecting previously unselected package uuid-dev:armhf. Preparing to unpack .../125-uuid-dev_2.40.2-11_armhf.deb ... Unpacking uuid-dev:armhf (2.40.2-11) ... Selecting previously unselected package libsm-dev:armhf. Preparing to unpack .../126-libsm-dev_2%3a1.2.4-1_armhf.deb ... Unpacking libsm-dev:armhf (2:1.2.4-1) ... Selecting previously unselected package libxt-dev:armhf. Preparing to unpack .../127-libxt-dev_1%3a1.2.1-1.2+b1_armhf.deb ... Unpacking libxt-dev:armhf (1:1.2.1-1.2+b1) ... Selecting previously unselected package libglut-dev:armhf. Preparing to unpack .../128-libglut-dev_3.4.0-1+b2_armhf.deb ... Unpacking libglut-dev:armhf (3.4.0-1+b2) ... Selecting previously unselected package freeglut3-dev:armhf. Preparing to unpack .../129-freeglut3-dev_3.4.0-1+b2_armhf.deb ... Unpacking freeglut3-dev:armhf (3.4.0-1+b2) ... Selecting previously unselected package tao-pegtl-dev. Preparing to unpack .../130-tao-pegtl-dev_3.2.7-1_all.deb ... Unpacking tao-pegtl-dev (3.2.7-1) ... Selecting previously unselected package gemmi-dev. Preparing to unpack .../131-gemmi-dev_0.6.5+ds-2_armhf.deb ... Unpacking gemmi-dev (0.6.5+ds-2) ... Selecting previously unselected package libblas3:armhf. Preparing to unpack .../132-libblas3_3.12.0-4_armhf.deb ... Unpacking libblas3:armhf (3.12.0-4) ... Selecting previously unselected package libblas-dev:armhf. Preparing to unpack .../133-libblas-dev_3.12.0-4_armhf.deb ... Unpacking libblas-dev:armhf (3.12.0-4) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../134-libgfortran5_14.2.0-8_armhf.deb ... Unpacking libgfortran5:armhf (14.2.0-8) ... Selecting previously unselected package liblapack3:armhf. Preparing to unpack .../135-liblapack3_3.12.0-4_armhf.deb ... Unpacking liblapack3:armhf (3.12.0-4) ... Selecting previously unselected package liblapack-dev:armhf. Preparing to unpack .../136-liblapack-dev_3.12.0-4_armhf.deb ... Unpacking liblapack-dev:armhf (3.12.0-4) ... Selecting previously unselected package libopenmm8.1. Preparing to unpack .../137-libopenmm8.1_8.1.2+dfsg-1+b1_armhf.deb ... Unpacking libopenmm8.1 (8.1.2+dfsg-1+b1) ... Selecting previously unselected package libopenmm-dev. Preparing to unpack .../138-libopenmm-dev_8.1.2+dfsg-1+b1_armhf.deb ... Unpacking libopenmm-dev (8.1.2+dfsg-1+b1) ... Selecting previously unselected package libseqan2-dev. Preparing to unpack .../139-libseqan2-dev_2.4.0+dfsg-16_all.deb ... Unpacking libseqan2-dev (2.4.0+dfsg-16) ... Selecting previously unselected package libxfixes-dev:armhf. Preparing to unpack .../140-libxfixes-dev_1%3a6.0.0-2+b2_armhf.deb ... Unpacking libxfixes-dev:armhf (1:6.0.0-2+b2) ... Selecting previously unselected package libxi-dev:armhf. Preparing to unpack .../141-libxi-dev_2%3a1.8.2-1_armhf.deb ... Unpacking libxi-dev:armhf (2:1.8.2-1) ... Selecting previously unselected package libxmu6:armhf. Preparing to unpack .../142-libxmu6_2%3a1.1.3-3+b3_armhf.deb ... Unpacking libxmu6:armhf (2:1.1.3-3+b3) ... Selecting previously unselected package libxmu-headers. Preparing to unpack .../143-libxmu-headers_2%3a1.1.3-3_all.deb ... Unpacking libxmu-headers (2:1.1.3-3) ... Selecting previously unselected package libxmu-dev:armhf. Preparing to unpack .../144-libxmu-dev_2%3a1.1.3-3+b3_armhf.deb ... Unpacking libxmu-dev:armhf (2:1.1.3-3+b3) ... Selecting previously unselected package libsimbody3.7:armhf. Preparing to unpack .../145-libsimbody3.7_3.7+dfsg-3+b1_armhf.deb ... Unpacking libsimbody3.7:armhf (3.7+dfsg-3+b1) ... Selecting previously unselected package libsimbody-dev:armhf. Preparing to unpack .../146-libsimbody-dev_3.7+dfsg-3+b1_armhf.deb ... Unpacking libsimbody-dev:armhf (3.7+dfsg-3+b1) ... Selecting previously unselected package libsimtkmolmodel3.1t64:armhf. Preparing to unpack .../147-libsimtkmolmodel3.1t64_3.1.0-4.1+b3_armhf.deb ... Unpacking libsimtkmolmodel3.1t64:armhf (3.1.0-4.1+b3) ... Selecting previously unselected package libsimtkmolmodel-dev:armhf. Preparing to unpack .../148-libsimtkmolmodel-dev_3.1.0-4.1+b3_armhf.deb ... Unpacking libsimtkmolmodel-dev:armhf (3.1.0-4.1+b3) ... Selecting previously unselected package libsimtkmolmodel-plugins. Preparing to unpack .../149-libsimtkmolmodel-plugins_3.1.0-4.1+b3_armhf.deb ... Unpacking libsimtkmolmodel-plugins (3.1.0-4.1+b3) ... Selecting previously unselected package libstb0t64:armhf. Preparing to unpack .../150-libstb0t64_0.0~git20240715.f7f20f39fe4f+ds-1_armhf.deb ... Unpacking libstb0t64:armhf (0.0~git20240715.f7f20f39fe4f+ds-1) ... Selecting previously unselected package libstb-dev:armhf. Preparing to unpack .../151-libstb-dev_0.0~git20240715.f7f20f39fe4f+ds-1_armhf.deb ... Unpacking libstb-dev:armhf (0.0~git20240715.f7f20f39fe4f+ds-1) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../152-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:armhf (1.5.8-1) ... Setting up libwayland-server0:armhf (1.23.0-1+b1) ... Setting up libxau6:armhf (1:1.0.11-1) ... Setting up libxdmcp6:armhf (1:1.1.5-1) ... Setting up libkeyutils1:armhf (1.6.3-4) ... Setting up libxcb1:armhf (1.17.0-2+b1) ... Setting up libicu72:armhf (72.1-5+b1) ... Setting up libxcb-xfixes0:armhf (1.17.0-2+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libglvnd-core-dev:armhf (1.7.0-1+b2) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglvnd0:armhf (1.7.0-1+b2) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libxcb-glx0:armhf (1.17.0-2+b1) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:armhf (1.1.0-2+b6) ... Setting up libedit2:armhf (3.1-20240808-1) ... Setting up libuv1t64:armhf (1.48.0-7) ... Setting up libmagic1t64:armhf (1:5.45-3+b1) ... Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libsensors-config (1:3.6.0-10) ... Setting up libpsl5t64:armhf (0.21.2-1.1+b1) ... Setting up libnghttp2-14:armhf (1.64.0-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libxcb-shm0:armhf (1.17.0-2+b1) ... Setting up libcom-err2:armhf (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libopengl0:armhf (1.7.0-1+b2) ... Setting up libelf1t64:armhf (0.192-4) ... Setting up libkrb5support0:armhf (1.21.3-3) ... Setting up libseqan2-dev (2.4.0+dfsg-16) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Nov 20 22:59:52 UTC 2024. Universal Time is now: Wed Nov 20 22:59:52 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:armhf (1.17.0-2+b1) ... Setting up xtrans-dev (1.4.0-1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:armhf (4.13.3-1) ... Setting up libblas3:armhf (3.12.0-4) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libgles2:armhf (1.7.0-1+b2) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libxcb-sync1:armhf (1.17.0-2+b1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libjsoncpp26:armhf (1.9.6-3) ... Setting up uuid-dev:armhf (2.40.2-11) ... Setting up libgles1:armhf (1.7.0-1+b2) ... Setting up libproc2-0:armhf (2:4.0.4-6) ... Setting up autopoint (0.22.5-2) ... Setting up libsensors5:armhf (1:3.6.0-10+b1) ... Setting up libk5crypto3:armhf (1.21.3-3) ... Setting up libglapi-mesa:armhf (24.2.7-1) ... Setting up libsasl2-2:armhf (2.1.28+dfsg1-8) ... Setting up libgfortran5:armhf (14.2.0-8) ... Setting up libvulkan1:armhf (1.3.296.0-1) ... Setting up autoconf (2.72-3) ... Setting up libxcb-dri2-0:armhf (1.17.0-2+b1) ... Setting up zlib1g-dev:armhf (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.24) ... Setting up libxshmfence1:armhf (1.3-1+b2) ... Setting up libxcb-randr0:armhf (1.17.0-2+b1) ... Setting up libuchardet0:armhf (0.0.8-1+b2) ... Setting up procps (2:4.0.4-6) ... Setting up libx11-6:armhf (2:1.8.10-2) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up netbase (6.4) ... Setting up sgml-base (1.31) ... Setting up cmake-data (3.31.0-1) ... Setting up librhash1:armhf (1.4.5-1) ... Setting up libkrb5-3:armhf (1.21.3-3) ... Setting up libglu1-mesa:armhf (9.0.2-1.1+b2) ... Setting up libssh2-1t64:armhf (1.11.1-1) ... Setting up libopengl-dev:armhf (1.7.0-1+b2) ... Setting up libstb0t64:armhf (0.0~git20240715.f7f20f39fe4f+ds-1) ... Setting up libopenmm8.1 (8.1.2+dfsg-1+b1) ... Setting up libdrm-common (2.4.123-1) ... Setting up readline-common (8.2-5) ... Setting up libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libblas-dev:armhf (3.12.0-4) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode Setting up tao-pegtl-dev (3.2.7-1) ... Setting up libwayland-client0:armhf (1.23.0-1+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up x11proto-dev (2024.1-1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libxcb-dri3-0:armhf (1.17.0-2+b1) ... Setting up libllvm19:armhf (1:19.1.3-2) ... Setting up libx11-xcb1:armhf (2:1.8.10-2) ... Setting up libice6:armhf (2:1.1.1-1) ... Setting up liblapack3:armhf (3.12.0-4) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up gettext (0.22.5-2) ... Setting up libxau-dev:armhf (1:1.0.11-1) ... Setting up libice-dev:armhf (2:1.1.1-1) ... Setting up libtool (2.4.7-8) ... Setting up gemmi-dev (0.6.5+ds-2) ... Setting up libxext6:armhf (2:1.3.4-1+b2) ... Setting up libopenmm-dev (8.1.2+dfsg-1+b1) ... Setting up libldap-2.5-0:armhf (2.5.18+dfsg-3+b1) ... Setting up libxxf86vm1:armhf (1:1.1.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libxdmcp-dev:armhf (1:1.1.5-1) ... Setting up libxfixes3:armhf (1:6.0.0-2+b2) ... Setting up liblapack-dev:armhf (3.12.0-4) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode Setting up libgssapi-krb5-2:armhf (1.21.3-3) ... Setting up libreadline8t64:armhf (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libdrm2:armhf (2.4.123-1) ... Setting up libstb-dev:armhf (0.0~git20240715.f7f20f39fe4f+ds-1) ... Setting up groff-base (1.23.0-5) ... Setting up xml-core (0.19) ... Setting up libxslt1.1:armhf (1.1.35-1.1+b1) ... Setting up libxml2-utils (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libsm6:armhf (2:1.2.4-1) ... Setting up libarchive13t64:armhf (3.7.4-1.1) ... Setting up libdrm-amdgpu1:armhf (2.4.123-1) ... Setting up libxcb1-dev:armhf (1.17.0-2+b1) ... Setting up libxi6:armhf (2:1.8.2-1) ... Setting up libcurl4t64:armhf (8.11.0-1) ... Setting up libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... Setting up libsm-dev:armhf (2:1.2.4-1) ... Setting up libdrm-radeon1:armhf (2.4.123-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up xsltproc (1.1.35-1.1+b1) ... Setting up libx11-dev:armhf (2:1.8.10-2) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxfixes-dev:armhf (1:6.0.0-2+b2) ... Setting up libxt6t64:armhf (1:1.2.1-1.2+b1) ... Setting up libxext-dev:armhf (2:1.3.4-1+b2) ... Setting up libnsl2:armhf (1.3.0-3+b3) ... Setting up cmake (3.31.0-1) ... Setting up libxi-dev:armhf (2:1.8.2-1) ... Setting up mesa-libgallium:armhf (24.2.7-1) ... Setting up libxmu-headers (2:1.1.3-3) ... Setting up libxmu6:armhf (2:1.1.3-3+b3) ... Setting up libpython3.12-stdlib:armhf (3.12.7-3) ... Setting up libgbm1:armhf (24.2.7-1) ... Setting up python3.12 (3.12.7-3) ... Setting up libgl1-mesa-dri:armhf (24.2.7-1) ... Setting up debhelper (13.20) ... Setting up libegl-mesa0:armhf (24.2.7-1) ... Setting up libxt-dev:armhf (1:1.2.1-1.2+b1) ... Setting up libegl1:armhf (1.7.0-1+b2) ... Setting up libpython3-stdlib:armhf (3.12.7-1) ... Setting up libglx-mesa0:armhf (24.2.7-1) ... Setting up libglx0:armhf (1.7.0-1+b2) ... Setting up python3 (3.12.7-1) ... Setting up libxmu-dev:armhf (2:1.1.3-3+b3) ... Setting up asciidoc-common (10.2.1-1) ... Setting up libgl1:armhf (1.7.0-1+b2) ... Setting up libglut3.12:armhf (3.4.0-1+b2) ... Setting up libsimbody3.7:armhf (3.7+dfsg-3+b1) ... Setting up libglx-dev:armhf (1.7.0-1+b2) ... Setting up libgl-dev:armhf (1.7.0-1+b2) ... Setting up libegl-dev:armhf (1.7.0-1+b2) ... Setting up libsimtkmolmodel3.1t64:armhf (3.1.0-4.1+b3) ... Setting up libglu1-mesa-dev:armhf (9.0.2-1.1+b2) ... Setting up libgles-dev:armhf (1.7.0-1+b2) ... Setting up libsimtkmolmodel-plugins (3.1.0-4.1+b3) ... Setting up libsimtkmolmodel-dev:armhf (3.1.0-4.1+b3) ... Setting up libglvnd-dev:armhf (1.7.0-1+b2) ... Setting up libgl1-mesa-dev:armhf (24.2.7-1) ... Setting up libglut-dev:armhf (3.4.0-1+b2) ... Setting up freeglut3-dev:armhf (3.4.0-1+b2) ... Setting up libsimbody-dev:armhf (3.7+dfsg-3+b1) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for sgml-base (1.31) ... Setting up docbook-xsl (1.79.2+dfsg-7) ... Setting up sgml-data (2.0.11+nmu1) ... Setting up asciidoc-base (10.2.1-1) ... Processing triggers for sgml-base (1.31) ... Setting up docbook-xml (4.5-13) ... Processing triggers for sgml-base (1.31) ... 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/macromoleculebuilder-4.0.0+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 > ../macromoleculebuilder_4.0.0+dfsg-3.1~exp1_source.changes dpkg-buildpackage: info: source package macromoleculebuilder dpkg-buildpackage: info: source version 4.0.0+dfsg-3.1~exp1 dpkg-buildpackage: info: source distribution experimental dpkg-buildpackage: info: source changed by Graham Inggs dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg' dh_auto_configure -- \ -DCMAKE_BUILD_TYPE=Release \ -DENABLE_LEPTON=OFF \ -DGEMMI_DIR=/usr \ -DOpenMM_INCLUDE_DIR=/usr/include \ -DSimTKmolmodel=/usr \ -DCMAKE_CXX_FLAGS="-D BuildNtC -D USE_OPENMM -g -O2 -ffile-prefix-map=/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O0" cd obj-arm-linux-gnueabihf && 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/arm-linux-gnueabihf -DCMAKE_BUILD_TYPE=Release -DENABLE_LEPTON=OFF -DGEMMI_DIR=/usr -DOpenMM_INCLUDE_DIR=/usr/include -DSimTKmolmodel=/usr "-DCMAKE_CXX_FLAGS=-D BuildNtC -D USE_OPENMM -g -O2 -ffile-prefix-map=/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O0" .. -- The CXX compiler identification is GNU 14.2.0 -- 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 OpenMM: /usr/include -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.3.1") -- Found gemmi version 0.6.5 -- Looking for copy_file_range -- Looking for copy_file_range - found -- Looking for sendfile -- Looking for sendfile - found -- Configuring done (1.8s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED SimTKmolmodel -- Build files have been written to: /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf make[1]: Leaving directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg' dh_auto_build cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg -B/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf/CMakeFiles /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' make -f CMakeFiles/MMB.dir/build.make CMakeFiles/MMB.dir/depend make[3]: Entering directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' cd /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf/CMakeFiles/MMB.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' make -f CMakeFiles/MMB.dir/build.make CMakeFiles/MMB.dir/build make[3]: Entering directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' [ 6%] Building CXX object CMakeFiles/MMB.dir/src/BiopolymerClass.cpp.o [ 6%] Building CXX object CMakeFiles/MMB.dir/src/Utils.cpp.o [ 9%] Building CXX object CMakeFiles/MMB.dir/src/UnitCellParameters.cpp.o /usr/bin/c++ -DHAVE_COPY_FILE_RANGE -DHAVE_SENDFILE -DMMB_BUILDING_SHARED_LIBRARY -DMMB_EXPORTS -DUSE_MMB_CONSTEXPR -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include -isystem /usr/include/simbody -isystem /usr/include/molmodel -D BuildNtC -D USE_OPENMM -g -O2 -ffile-prefix-map=/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O0 -fvisibility=hidden -Wall -pedantic -O3 -DNDEBUG -fPIC -MD -MT CMakeFiles/MMB.dir/src/Utils.cpp.o -MF CMakeFiles/MMB.dir/src/Utils.cpp.o.d -o CMakeFiles/MMB.dir/src/Utils.cpp.o -c /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/Utils.cpp /usr/bin/c++ -DHAVE_COPY_FILE_RANGE -DHAVE_SENDFILE -DMMB_BUILDING_SHARED_LIBRARY -DMMB_EXPORTS -DUSE_MMB_CONSTEXPR -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include -isystem /usr/include/simbody -isystem /usr/include/molmodel -D BuildNtC -D USE_OPENMM -g -O2 -ffile-prefix-map=/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O0 -fvisibility=hidden -Wall -pedantic -O3 -DNDEBUG -fPIC -MD -MT CMakeFiles/MMB.dir/src/BiopolymerClass.cpp.o -MF CMakeFiles/MMB.dir/src/BiopolymerClass.cpp.o.d -o CMakeFiles/MMB.dir/src/BiopolymerClass.cpp.o -c /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp /usr/bin/c++ -DHAVE_COPY_FILE_RANGE -DHAVE_SENDFILE -DMMB_BUILDING_SHARED_LIBRARY -DMMB_EXPORTS -DUSE_MMB_CONSTEXPR -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg -I/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include -isystem /usr/include/simbody -isystem /usr/include/molmodel -D BuildNtC -D USE_OPENMM -g -O2 -ffile-prefix-map=/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O0 -fvisibility=hidden -Wall -pedantic -O3 -DNDEBUG -fPIC -MD -MT CMakeFiles/MMB.dir/src/UnitCellParameters.cpp.o -MF CMakeFiles/MMB.dir/src/UnitCellParameters.cpp.o.d -o CMakeFiles/MMB.dir/src/UnitCellParameters.cpp.o -c /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/UnitCellParameters.cpp In file included from /usr/include/simbody/SimTKcommon/Simmatrix.h:36, from /usr/include/simbody/SimTKcommon.h:35, from /usr/include/simbody/Simbody.h:38, from /usr/include/molmodel/SimTKmolmodel.h:47, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/UnitCellParameters.h:3, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/UnitCellParameters.cpp:4: /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(double)': /usr/include/simbody/SimTKcommon/Scalar.h:1169:43: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1169 | approxCompleteEllipticIntegralsKE(double m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(float)': /usr/include/simbody/SimTKcommon/Scalar.h:1177:42: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1177 | approxCompleteEllipticIntegralsKE(float m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(int)': /usr/include/simbody/SimTKcommon/Scalar.h:1186:40: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1186 | approxCompleteEllipticIntegralsKE(int m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::completeEllipticIntegralsKE(float)': /usr/include/simbody/SimTKcommon/Scalar.h:1257:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1257 | inline std::pair completeEllipticIntegralsKE(float m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::completeEllipticIntegralsKE(int)': /usr/include/simbody/SimTKcommon/Scalar.h:1265:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1265 | inline std::pair completeEllipticIntegralsKE(int m) | ^ In file included from /usr/include/simbody/SimTKcommon/Simmatrix.h:36, from /usr/include/simbody/SimTKcommon.h:35, from /usr/include/simbody/SimTKsimbody.h:43, from /usr/include/molmodel/molmodel/internal/Compound.h:36, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/BiopolymerClass.h:16, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:14: /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(double)': /usr/include/simbody/SimTKcommon/Scalar.h:1169:43: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1169 | approxCompleteEllipticIntegralsKE(double m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(float)': /usr/include/simbody/SimTKcommon/Scalar.h:1177:42: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1177 | approxCompleteEllipticIntegralsKE(float m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(int)': /usr/include/simbody/SimTKcommon/Scalar.h:1186:40: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1186 | approxCompleteEllipticIntegralsKE(int m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::completeEllipticIntegralsKE(float)': /usr/include/simbody/SimTKcommon/Scalar.h:1257:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1257 | inline std::pair completeEllipticIntegralsKE(float m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::completeEllipticIntegralsKE(int)': /usr/include/simbody/SimTKcommon/Scalar.h:1265:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1265 | inline std::pair completeEllipticIntegralsKE(int m) | ^ In file included from /usr/include/simbody/SimTKcommon/Simmatrix.h:36, from /usr/include/simbody/SimTKcommon.h:35, from /usr/include/simbody/SimTKsimbody.h:43, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:22, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/Utils.cpp:12: /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(double)': /usr/include/simbody/SimTKcommon/Scalar.h:1169:43: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1169 | approxCompleteEllipticIntegralsKE(double m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(float)': /usr/include/simbody/SimTKcommon/Scalar.h:1177:42: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1177 | approxCompleteEllipticIntegralsKE(float m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::approxCompleteEllipticIntegralsKE(int)': /usr/include/simbody/SimTKcommon/Scalar.h:1186:40: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1186 | approxCompleteEllipticIntegralsKE(int m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::completeEllipticIntegralsKE(float)': /usr/include/simbody/SimTKcommon/Scalar.h:1257:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1257 | inline std::pair completeEllipticIntegralsKE(float m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In function 'std::pair SimTK::completeEllipticIntegralsKE(int)': /usr/include/simbody/SimTKcommon/Scalar.h:1265:66: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1265 | inline std::pair completeEllipticIntegralsKE(int m) | ^ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::approxCompleteEllipticIntegralsKE_T(T) [with T = float]': /usr/include/simbody/SimTKcommon/Scalar.h:1178:54: required from here 1178 | { return approxCompleteEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1095:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1095 | static inline std::pair approxCompleteEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::completeEllipticIntegralsKE_T(T) [with T = double]': /usr/include/simbody/SimTKcommon/Scalar.h:1249:49: required from here 1249 | { return completeEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1192:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1192 | static inline std::pair completeEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::completeEllipticIntegralsKE_T(T) [with T = float]': /usr/include/simbody/SimTKcommon/Scalar.h:1258:48: required from here 1258 | { return completeEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1192:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1192 | static inline std::pair completeEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'virtual SimTK::Real ConstraintFunction::calcDerivative(const SimTK::Array_&, const SimTK::Vector&) const': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:290:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 290 | if (derivComponents.size() == 1) | ^~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:292:14: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 292 | return 0; | ^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In constructor 'ResidueID::ResidueID(SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:321:14: warning: unused variable 'endChar' [-Wunused-variable] 321 | char endChar = *(inputString.substr(stringLength-1, 1)).c_str(); | ^~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'const SimTK::String ResidueID::chainIDResidueID(const SimTK::String&) const': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:386:45: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] 386 | if ((myStringStream.str()).length() != (totalWidth - 1)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'void Interface::print()': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:666:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 666 | for (int i = 0; i < Chains.size(); i ++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:670:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 670 | for (int i = 0; i < Chains.size(); i ++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In constructor 'MMBAtomInfo::MMBAtomInfo(SimTK::String, ResidueID, SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1294:16: warning: 'MMBAtomInfo::chain' will be initialized after [-Wreorder] 1294 | String chain; | ^~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1292:19: warning: 'ResidueID MMBAtomInfo::residueID' [-Wreorder] 1292 | ResidueID residueID; | ^~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1308:9: warning: when initialized here [-Wreorder] 1308 | MMBAtomInfo(String myChain, ResidueID myResidueID, String myAtomName) : | ^~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In constructor 'MMBAtomInfo::MMBAtomInfo(SimTK::String, ResidueID, SimTK::ResidueInfo::Index, SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1294:16: warning: 'MMBAtomInfo::chain' will be initialized after [-Wreorder] 1294 | String chain; | ^~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1292:19: warning: 'ResidueID MMBAtomInfo::residueID' [-Wreorder] 1292 | ResidueID residueID; | ^~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1314:9: warning: when initialized here [-Wreorder] 1314 | MMBAtomInfo(String myChain, ResidueID myResidueID, ResidueInfo::Index myResidueIndex, String myAtomName) : | ^~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'void InterfaceContainer::addInterface(std::vector, double, SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1379:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 1379 | for (int i = 0; i < myChains.size(); i++) {myInterface.Chains.push_back( myChains[i]);} myInterface.Depth = myDepth; myInterface.MobilizerString = myMobilizerString; interfaceVector.push_back(myInterface); }; | ~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/Utils.cpp: In function 'auto getFileSizeFromFd(int)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/Utils.cpp:290:15: error: inconsistent deduction for auto return type: 'long int' and then 'long long int' 290 | return st.st_size; | ~~~^~~~~~~ In file included from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Mutation.h:4, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/BiopolymerClass.h:20: /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'virtual SimTK::Real ConstraintFunction::calcDerivative(const SimTK::Array_&, const SimTK::Vector&) const': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:290:10: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 290 | if (derivComponents.size() == 1) | ^~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:292:14: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 292 | return 0; | ^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In constructor 'ResidueID::ResidueID(SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:321:14: warning: unused variable 'endChar' [-Wunused-variable] 321 | char endChar = *(inputString.substr(stringLength-1, 1)).c_str(); | ^~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'const SimTK::String ResidueID::chainIDResidueID(const SimTK::String&) const': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:386:45: warning: comparison of integer expressions of different signedness: 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} and 'int' [-Wsign-compare] 386 | if ((myStringStream.str()).length() != (totalWidth - 1)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'void Interface::print()': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:666:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 666 | for (int i = 0; i < Chains.size(); i ++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:670:38: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 670 | for (int i = 0; i < Chains.size(); i ++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In constructor 'MMBAtomInfo::MMBAtomInfo(SimTK::String, ResidueID, SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1294:16: warning: 'MMBAtomInfo::chain' will be initialized after [-Wreorder] 1294 | String chain; | ^~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1292:19: warning: 'ResidueID MMBAtomInfo::residueID' [-Wreorder] 1292 | ResidueID residueID; | ^~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1308:9: warning: when initialized here [-Wreorder] 1308 | MMBAtomInfo(String myChain, ResidueID myResidueID, String myAtomName) : | ^~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In constructor 'MMBAtomInfo::MMBAtomInfo(SimTK::String, ResidueID, SimTK::ResidueInfo::Index, SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1294:16: warning: 'MMBAtomInfo::chain' will be initialized after [-Wreorder] 1294 | String chain; | ^~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1292:19: warning: 'ResidueID MMBAtomInfo::residueID' [-Wreorder] 1292 | ResidueID residueID; | ^~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1314:9: warning: when initialized here [-Wreorder] 1314 | MMBAtomInfo(String myChain, ResidueID myResidueID, ResidueInfo::Index myResidueIndex, String myAtomName) : | ^~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h: In member function 'void InterfaceContainer::addInterface(std::vector, double, SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/Utils.h:1379:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 1379 | for (int i = 0; i < myChains.size(); i++) {myInterface.Chains.push_back( myChains[i]);} myInterface.Depth = myDepth; myInterface.MobilizerString = myMobilizerString; interfaceVector.push_back(myInterface); }; | ~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/BiopolymerClass.h: In member function 'void BiopolymerClass::printAtomInfoVector()': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/BiopolymerClass.h:255:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 255 | void printAtomInfoVector(){for (int i = 0 ; i < atomInfoVector.size(); i++) atomInfoVector[i].print(); }; | ~~^~~~~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::approxCompleteEllipticIntegralsKE_T(T) [with T = float]': /usr/include/simbody/SimTKcommon/Scalar.h:1178:54: required from here 1178 | { return approxCompleteEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1095:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1095 | static inline std::pair approxCompleteEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::completeEllipticIntegralsKE_T(T) [with T = double]': /usr/include/simbody/SimTKcommon/Scalar.h:1249:49: required from here 1249 | { return completeEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1192:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1192 | static inline std::pair completeEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::completeEllipticIntegralsKE_T(T) [with T = float]': /usr/include/simbody/SimTKcommon/Scalar.h:1258:48: required from here 1258 | { return completeEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1192:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1192 | static inline std::pair completeEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In function 'bool letterIsPurine(char)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:51:14: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 51 | return c == 'A' | c == 'G'; | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In function 'bool letterIsRNA(char)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:57:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 57 | c == 'A' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:59:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 59 | c == 'G' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:60:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 60 | c == 'U' | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In function 'bool letterIsDNA(char)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:67:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 67 | c == 'A' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:69:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 69 | c == 'G' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:70:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 70 | c == 'T' | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In function 'bool letterIsProtein(char)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:77:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 77 | c == 'C' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:79:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 79 | c == 'H' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:80:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 80 | c == 'I' | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:86:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 86 | c == 'M' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:88:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 88 | c == 'V' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:89:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 89 | c == 'A' | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:95:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 95 | c == 'G' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:97:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 97 | c == 'P' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:98:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 98 | c == 'T' | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:104:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 104 | c == 'R' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:106:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 106 | c == 'Y' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:107:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 107 | c == 'W' | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:113:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 113 | c == 'D' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:115:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 115 | c == 'E' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:116:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 116 | c == 'Q' | | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:117:11: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses] 117 | c == 'K' | ~~^~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'void BiopolymerClass::modifyResidue(BiopolymerModification, SimTK::Compound, SimTK::DuMMForceFieldSubsystem&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:127:41: warning: variable 'myChargedAtomTypeIndex' set but not used [-Wunused-but-set-variable] 127 | DuMM::ChargedAtomTypeIndex myChargedAtomTypeIndex = dumm.getBiotypeChargedAtomType( compoundToAdd.getAtomBiotypeIndex(Compound::AtomIndex( 0))); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:135:29: warning: unused variable 'myOrdinality' [-Wunused-variable] 135 | Ordinality::Residue myOrdinality(SimTK::Ordinality::Any); | ^~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:147:32: warning: unused variable 'myBondMobility' [-Wunused-variable] 147 | BondMobility::Mobility myBondMobility = stringToBondMobility("Rigid"); | ^~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'int BiopolymerClass::checkResidueNumbersAndInsertionCodes()': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:244:15: warning: variable 'myResidueID' set but not used [-Wunused-but-set-variable] 244 | ResidueID myResidueID = getFirstResidueID(); | ^~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'void BiopolymerClass::setPdbResidueNumbersFromResidueIDVector()': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:518:15: warning: variable 'myFirstResidueID' set but not used [-Wunused-but-set-variable] 518 | ResidueID myFirstResidueID = getFirstResidueID() ; | ^~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:520:9: warning: unused variable 'numResidues' [-Wunused-variable] 520 | int numResidues = -1; | ^~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'void BiopolymerClass::renumberPdbResidues(ResidueID)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:551:9: warning: unused variable 'myNewResidueNumberWithoutInsertionCode' [-Wunused-variable] 551 | int myNewResidueNumberWithoutInsertionCode = firstResidueID.getResidueNumber() ; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'int BiopolymerClass::matchCoordinates(const SimTK::PdbStructure&, bool, bool, bool, bool, bool, bool, double, double)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:669:45: warning: variable 'biopolymerAtomTargetsIterator' set but not used [-Wunused-but-set-variable] 669 | Compound::AtomTargetLocations::iterator biopolymerAtomTargetsIterator = biopolymerAtomTargets.begin(); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'bool BiopolymerClass::hasAtom(ResidueID, SimTK::String)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:1053:9: warning: unused variable 'myResidueIndex' [-Wunused-variable] 1053 | int myResidueIndex = getResidueIndex(myResidueID); | ^~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'SimTK::Vec3 BiopolymerClass::calcDefaultAtomLocationInGroundFrame(const ResidueID&, const SimTK::String&) const': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:1316:25: warning: variable 'myAtomIndex' set but not used [-Wunused-but-set-variable] 1316 | Compound::AtomIndex myAtomIndex = atomIndex(myResidueID,atomName); | ^~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'void BiopolymerClass::addGeneralSterics(SimTK::GeneralContactSubsystem&, SimTK::ContactSetIndex, SimTK::HuntCrossleyForce&, SimTK::SimbodyMatterSubsystem&, double, double, ResidueID, ResidueID, bool, bool)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:1437:12: warning: unused variable 'huntCrossleyDissipation' [-Wunused-variable] 1437 | double huntCrossleyDissipation =.0; | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'ResidueID BiopolymerClass::sum(ResidueID, int) const': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:2172:55: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 2172 | if ((newResidueIndex < 0) || (newResidueIndex >= residueIDVector.size())) { | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'void BiopolymerClassContainer::waterDropletAboutResidues(std::vector, WaterDropletContainer&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:3577:23: warning: variable 'myLocation' set but not used [-Wunused-but-set-variable] 3577 | Vec3 myLocation = (primaryBiopolymerClass.calcDefaultAtomLocationInGroundFrame(waterDropletAboutResidueVector[i].residue, primaryBiopolymerClass.getRepresentativeAtomName()))*(1.0); // used to convert to Å, now using nm | ^~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'void BiopolymerClassContainer::substituteResidue(SimTK::String, ResidueID, SimTK::String, bool)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4130:15: warning: variable 'myFirstResidueNumber' set but not used [-Wunused-but-set-variable] 4130 | ResidueID myFirstResidueNumber = myOldBiopolymerClass.getFirstResidueID(); | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp: In member function 'void BiopolymerClassContainer::substituteResidue(Mutation, bool, bool, bool)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4519:15: warning: variable 'myFirstResidueNumber' set but not used [-Wunused-but-set-variable] 4519 | ResidueID myFirstResidueNumber = myOldBiopolymerClass.getFirstResidueID(); | ^~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::approxCompleteEllipticIntegralsKE_T(T) [with T = float]': /usr/include/simbody/SimTKcommon/Scalar.h:1178:54: required from here 1178 | { return approxCompleteEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1095:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1095 | static inline std::pair approxCompleteEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::completeEllipticIntegralsKE_T(T) [with T = double]': /usr/include/simbody/SimTKcommon/Scalar.h:1249:49: required from here 1249 | { return completeEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1192:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1192 | static inline std::pair completeEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/simbody/SimTKcommon/Scalar.h: In instantiation of 'std::pair<_FIter, _FIter> SimTK::completeEllipticIntegralsKE_T(T) [with T = float]': /usr/include/simbody/SimTKcommon/Scalar.h:1258:48: required from here 1258 | { return completeEllipticIntegralsKE_T(m); } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/simbody/SimTKcommon/Scalar.h:1192:30: note: parameter passing for argument of type 'std::pair' when C++17 is enabled changed to match C++14 in GCC 10.1 1192 | static inline std::pair completeEllipticIntegralsKE_T(T m) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ContactContainer.h:15, from /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:16: /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h: In instantiation of 'void ResidueStretchContainer::addIntraChainInterfaceResidues(double, SimTK::String, BiopolymerClassContainer&) [with ResidueStretchType = SingleResidue]': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4682:61: required from here 4682 | myResidueStretchContainer.addIntraChainInterfaceResidues( radius, chain, *this ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h:283:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 283 | for (int i = 0; i < chainAtomInfoVector.size() ; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h:300:33: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] 300 | for ( int j = 0 ; j < neighborList.size(); j++) { | ~~^~~~~~~~~~~~~~~~~~~~~ make[3]: *** [CMakeFiles/MMB.dir/build.make:82: CMakeFiles/MMB.dir/src/Utils.cpp.o] Error 1 make[3]: *** Waiting for unfinished jobs.... /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h: In instantiation of 'void ResidueStretchContainer::printResidueStretchVector() [with ResidueStretchType = MobilizerStretch]': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:2584:54: required from 'void BiopolymerClass::selectivelyRemoveResidueStretchFromContainer(const ResidueStretch&, ResidueStretchContainer&) [with ResidueStretchType = MobilizerStretch]' 2584 | residueStretchContainer.printResidueStretchVector(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:2588:181: required from here 2588 | template void BiopolymerClass::selectivelyRemoveResidueStretchFromContainer(const ResidueStretch &residueStretch, ResidueStretchContainer &residueStretchContainer); | ^ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h:61:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 61 | for (int i = 0 ; i ::vectorHasResidueStretch(ResidueStretchType&) [with ResidueStretchType = SingleResidue]': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h:320:27: required from 'void ResidueStretchContainer::addIntraChainInterfaceResidues(double, SimTK::String, BiopolymerClassContainer&) [with ResidueStretchType = SingleResidue]' 320 | if (!(vectorHasResidueStretch(myResidueStretch1))) {addResidueStretchToVector(myResidueStretch1); | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4682:61: required from here 4682 | myResidueStretchContainer.addIntraChainInterfaceResidues( radius, chain, *this ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h:104:36: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'unsigned int'} [-Wsign-compare] 104 | for (int i = 0 ; i ::printResidueStretchVector() [with ResidueStretchType = DensityStretch]': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4827:54: required from 'void BiopolymerClassContainer::selectivelyRemoveRigidMobilizerStretchesFromResidueStretchContainer(MobilizerContainer&, ResidueStretchContainer&) [with ResidueStretchType = DensityStretch]' 4827 | residueStretchContainer.printResidueStretchVector(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4830:213: required from here 4830 | template void BiopolymerClassContainer::selectivelyRemoveRigidMobilizerStretchesFromResidueStretchContainer(MobilizerContainer &mobilizerContainer, ResidueStretchContainer &residueStretchContainer); | ^ /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/include/ResidueStretchContainer.h:61:28: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'unsigned int'} [-Wsign-compare] 61 | for (int i = 0 ; i ; _ForwardIterator = MMBAtomInfo*]': /usr/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type 'std::move_iterator' changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type 'std::move_iterator' changed in GCC 7.1 In file included from /usr/include/simbody/SimTKcommon/SmallMatrix.h:93, from /usr/include/simbody/SimTKcommon/Simmatrix.h:37: In member function 'SimTK::Vec& SimTK::Vec::scalarEq(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]', inlined from 'SimTK::Vec& SimTK::Vec::operator=(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]' at /usr/include/simbody/SimTKcommon/internal/Vec.h:775:70, inlined from 'SimTK::Mat::Mat(const E&) [with int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:361:56, inlined from 'SimTK::Mat::Mat(int) [with int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:377:9, inlined from 'SimTK::Rotation_

::Rotation_() [with P = double]' at /usr/include/simbody/SimTKcommon/internal/Rotation.h:137:23, inlined from 'int BiopolymerClass::initializeBiopolymer(SimTK::CompoundSystem&, bool, bool, bool, bool, bool, bool, bool, int, double, const std::vector&, double, double, const std::vector&, PdbStructureMapType&)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: /usr/include/simbody/SimTKcommon/internal/Vec.h:784:42: warning: array subscript 'SimTK::Vec<3, double, 4>[0]' is partly outside array bounds of 'SimTK::Rotation [1]' {aka 'SimTK::Rotation_ [1]'} [-Warray-bounds=] 784 | { for(int i=0;i&, double, double, const std::vector&, PdbStructureMapType&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: note: object 'myRotation' of size 72 875 | Rotation myRotation; | ^~~~~~~~~~ In member function 'SimTK::Vec& SimTK::Vec::scalarEq(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]', inlined from 'SimTK::Vec& SimTK::Vec::operator=(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]' at /usr/include/simbody/SimTKcommon/internal/Vec.h:775:70, inlined from 'SimTK::Mat::Mat(const E&) [with int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:361:56, inlined from 'SimTK::Mat::Mat(int) [with int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:377:9, inlined from 'SimTK::Rotation_

::Rotation_() [with P = double]' at /usr/include/simbody/SimTKcommon/internal/Rotation.h:137:23, inlined from 'int BiopolymerClass::initializeBiopolymer(SimTK::CompoundSystem&, bool, bool, bool, bool, bool, bool, bool, int, double, const std::vector&, double, double, const std::vector&, PdbStructureMapType&)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: /usr/include/simbody/SimTKcommon/internal/Vec.h:784:42: warning: array subscript 'SimTK::Vec<3, double, 4>[0]' is partly outside array bounds of 'SimTK::Rotation [1]' {aka 'SimTK::Rotation_ [1]'} [-Warray-bounds=] 784 | { for(int i=0;i&, double, double, const std::vector&, PdbStructureMapType&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: note: object 'myRotation' of size 72 875 | Rotation myRotation; | ^~~~~~~~~~ In member function 'SimTK::Vec& SimTK::Vec::scalarEq(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]', inlined from 'SimTK::Vec& SimTK::Vec::operator=(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]' at /usr/include/simbody/SimTKcommon/internal/Vec.h:775:70, inlined from 'SimTK::Mat::Mat(const E&) [with int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:361:56, inlined from 'SimTK::Mat::Mat(int) [with int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:377:9, inlined from 'SimTK::Rotation_

::Rotation_() [with P = double]' at /usr/include/simbody/SimTKcommon/internal/Rotation.h:137:23, inlined from 'int BiopolymerClass::initializeBiopolymer(SimTK::CompoundSystem&, bool, bool, bool, bool, bool, bool, bool, int, double, const std::vector&, double, double, const std::vector&, PdbStructureMapType&)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: /usr/include/simbody/SimTKcommon/internal/Vec.h:784:42: warning: array subscript 'SimTK::Vec<3, double, 4>[0]' is partly outside array bounds of 'SimTK::Rotation [1]' {aka 'SimTK::Rotation_ [1]'} [-Warray-bounds=] 784 | { for(int i=0;i&, double, double, const std::vector&, PdbStructureMapType&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: note: object 'myRotation' of size 72 875 | Rotation myRotation; | ^~~~~~~~~~ In member function 'SimTK::Vec& SimTK::Vec::scalarEq(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]', inlined from 'SimTK::Mat& SimTK::Mat::scalarEq(const EE&) [with EE = double; int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:882:24, inlined from 'SimTK::Mat& SimTK::Mat::operator=(const EE&) [with EE = double; int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:872:70, inlined from 'SimTK::Rotation_

& SimTK::Rotation_

::setRotationToIdentityMatrix() [with P = double]' at /usr/include/simbody/SimTKcommon/internal/Rotation.h:157:20, inlined from 'int BiopolymerClass::initializeBiopolymer(SimTK::CompoundSystem&, bool, bool, bool, bool, bool, bool, bool, int, double, const std::vector&, double, double, const std::vector&, PdbStructureMapType&)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:876:44: /usr/include/simbody/SimTKcommon/internal/Vec.h:784:42: warning: array subscript 'SimTK::Vec<3, double, 4>[0]' is partly outside array bounds of 'SimTK::Rotation [1]' {aka 'SimTK::Rotation_ [1]'} [-Warray-bounds=] 784 | { for(int i=0;i&, double, double, const std::vector&, PdbStructureMapType&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: note: object 'myRotation' of size 72 875 | Rotation myRotation; | ^~~~~~~~~~ In member function 'SimTK::Vec& SimTK::Vec::scalarEq(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]', inlined from 'SimTK::Mat& SimTK::Mat::scalarEq(const EE&) [with EE = double; int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:882:24, inlined from 'SimTK::Mat& SimTK::Mat::operator=(const EE&) [with EE = double; int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:872:70, inlined from 'SimTK::Rotation_

& SimTK::Rotation_

::setRotationToIdentityMatrix() [with P = double]' at /usr/include/simbody/SimTKcommon/internal/Rotation.h:157:20, inlined from 'int BiopolymerClass::initializeBiopolymer(SimTK::CompoundSystem&, bool, bool, bool, bool, bool, bool, bool, int, double, const std::vector&, double, double, const std::vector&, PdbStructureMapType&)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:876:44: /usr/include/simbody/SimTKcommon/internal/Vec.h:784:42: warning: array subscript 'SimTK::Vec<3, double, 4>[0]' is partly outside array bounds of 'SimTK::Rotation [1]' {aka 'SimTK::Rotation_ [1]'} [-Warray-bounds=] 784 | { for(int i=0;i&, double, double, const std::vector&, PdbStructureMapType&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: note: object 'myRotation' of size 72 875 | Rotation myRotation; | ^~~~~~~~~~ In member function 'SimTK::Vec& SimTK::Vec::scalarEq(const EE&) [with EE = double; int M = 3; ELT = double; int STRIDE = 4]', inlined from 'SimTK::Mat& SimTK::Mat::scalarEq(const EE&) [with EE = double; int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:882:24, inlined from 'SimTK::Mat& SimTK::Mat::operator=(const EE&) [with EE = double; int M = 3; int N = 3; ELT = double; int CS = 3; int RS = 1]' at /usr/include/simbody/SimTKcommon/internal/Mat.h:872:70, inlined from 'SimTK::Rotation_

& SimTK::Rotation_

::setRotationToIdentityMatrix() [with P = double]' at /usr/include/simbody/SimTKcommon/internal/Rotation.h:157:20, inlined from 'int BiopolymerClass::initializeBiopolymer(SimTK::CompoundSystem&, bool, bool, bool, bool, bool, bool, bool, int, double, const std::vector&, double, double, const std::vector&, PdbStructureMapType&)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:876:44: /usr/include/simbody/SimTKcommon/internal/Vec.h:784:42: warning: array subscript 'SimTK::Vec<3, double, 4>[0]' is partly outside array bounds of 'SimTK::Rotation [1]' {aka 'SimTK::Rotation_ [1]'} [-Warray-bounds=] 784 | { for(int i=0;i&, double, double, const std::vector&, PdbStructureMapType&)': /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:875:14: note: object 'myRotation' of size 72 875 | Rotation myRotation; | ^~~~~~~~~~ /usr/include/c++/14/bits/stl_uninitialized.h: In function '_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = MMBAtomInfo*]': /usr/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/14/vector:72, from /usr/include/simbody/SimTKcommon/internal/Array.h:39, from /usr/include/simbody/SimTKcommon/basics.h:53: /usr/include/c++/14/bits/vector.tcc: In function 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = MMBAtomInfo; _Alloc = std::allocator]': /usr/include/c++/14/bits/vector.tcc:954:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 954 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/vector.tcc:954:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/14/bits/vector.tcc:954:7: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator; _ForwardIterator = MMBAtomInfo*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = move_iterator; _ForwardIterator = MMBAtomInfo*]' at /usr/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = move_iterator; _ForwardIterator = MMBAtomInfo*; _Tp = MMBAtomInfo]' at /usr/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from '_ForwardIterator std::__uninitialized_move_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = MMBAtomInfo*; _ForwardIterator = MMBAtomInfo*; _Allocator = allocator]' at /usr/include/c++/14/bits/stl_uninitialized.h:384:41, inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = MMBAtomInfo; _Alloc = std::allocator]' at /usr/include/c++/14/bits/vector.tcc:969:34: /usr/include/c++/14/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type 'std::move_iterator' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = MMBAtomInfo*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = MMBAtomInfo*]' at /usr/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = MMBAtomInfo*; _Tp = MMBAtomInfo]' at /usr/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = MMBAtomInfo; _Alloc = std::allocator]' at /usr/include/c++/14/bits/vector.tcc:984:34: /usr/include/c++/14/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator; _ForwardIterator = MMBAtomInfo*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = move_iterator; _ForwardIterator = MMBAtomInfo*]' at /usr/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = move_iterator; _ForwardIterator = MMBAtomInfo*; _Tp = MMBAtomInfo]' at /usr/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from '_ForwardIterator std::__uninitialized_move_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = MMBAtomInfo*; _ForwardIterator = MMBAtomInfo*; _Allocator = allocator]' at /usr/include/c++/14/bits/stl_uninitialized.h:384:41, inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = MMBAtomInfo; _Alloc = std::allocator]' at /usr/include/c++/14/bits/vector.tcc:989:34: /usr/include/c++/14/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type 'std::move_iterator' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function 'static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = MMBAtomInfo*; bool _TrivialValueTypes = false]', inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = MMBAtomInfo*]' at /usr/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = MMBAtomInfo*; _Tp = MMBAtomInfo]' at /usr/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = MMBAtomInfo; _Alloc = std::allocator]' at /usr/include/c++/14/bits/vector.tcc:1022:38: /usr/include/c++/14/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/vector:66: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = MMBAtomInfo; _Alloc = std::allocator]', inlined from 'std::vector BiopolymerClassContainer::getConcatenatedAtomInfoVector(const SimTK::State&, bool)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4286:28: /usr/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1488 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1489 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = MMBAtomInfo; _Alloc = std::allocator]', inlined from 'std::vector BiopolymerClassContainer::getConcatenatedAtomInfoVector(bool)' at /build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/src/BiopolymerClass.cpp:4262:28: /usr/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1488 | _M_range_insert(begin() + __offset, __first, __last, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1489 | std::__iterator_category(__first)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_vector.h:1488:26: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 make[3]: Leaving directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' make[2]: *** [CMakeFiles/Makefile2:93: CMakeFiles/MMB.dir/all] Error 2 make[2]: Leaving directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' make[1]: *** [Makefile:139: all] Error 2 make[1]: Leaving directory '/build/reproducible-path/macromoleculebuilder-4.0.0+dfsg/obj-arm-linux-gnueabihf' dh_auto_build: error: cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 returned exit code 2 make: *** [debian/rules:9: binary] Error 25 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/29190 and its subdirectories