I: pbuilder: network access will be disabled during build I: Current time: Sun Aug 2 09:01:35 -12 2020 I: pbuilder-time-stamp: 1596402095 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration 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 [clipper_2.1.20160809-2.dsc] I: copying [./clipper_2.1.20160809.orig.tar.gz] I: copying [./clipper_2.1.20160809-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat Jun 30 21:21:53 2018 -12 gpgv: using RSA key D9B453B799B8830D945E6A0A5BF54E5E12B900BB gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./clipper_2.1.20160809-2.dsc dpkg-source: info: extracting clipper in clipper-2.1.20160809 dpkg-source: info: unpacking clipper_2.1.20160809.orig.tar.gz dpkg-source: info: unpacking clipper_2.1.20160809-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add-mmdb2-to-examples-LIBS.patch dpkg-source: info: applying narrowing-conversions.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/17381/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' 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='' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='19da3cff23b44c8abd634eaa510f5480' 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='17381' 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/tmp.T3O4VNGAow/pbuilderrc_XYYd --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.T3O4VNGAow/b1 --logfile b1/build.log clipper_2.1.20160809-2.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://10.0.0.15:8000/' I: uname -a Linux cbxi4a 4.19.0-10-armmp #1 SMP Debian 4.19.132-1 (2020-07-24) armv7l GNU/Linux I: ls -l /bin total 3328 -rwxr-xr-x 1 root root 767656 Apr 17 2019 bash -rwxr-xr-x 3 root root 26052 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 26052 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 26052 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 9636 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 22432 Feb 28 2019 cat -rwxr-xr-x 1 root root 38868 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 38836 Feb 28 2019 chmod -rwxr-xr-x 1 root root 42972 Feb 28 2019 chown -rwxr-xr-x 1 root root 88376 Feb 28 2019 cp -rwxr-xr-x 1 root root 75516 Jan 17 2019 dash -rwxr-xr-x 1 root root 71648 Feb 28 2019 date -rwxr-xr-x 1 root root 51212 Feb 28 2019 dd -rwxr-xr-x 1 root root 55672 Feb 28 2019 df -rwxr-xr-x 1 root root 88444 Feb 28 2019 dir -rwxr-xr-x 1 root root 54872 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 22364 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 18260 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 47356 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 21980 Apr 22 07:38 fusermount -rwxr-xr-x 1 root root 124508 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 64232 Jan 5 2019 gzip -rwxr-xr-x 1 root root 13784 Sep 26 2018 hostname -rwxr-xr-x 1 root root 43044 Feb 28 2019 ln -rwxr-xr-x 1 root root 34932 Jul 26 2018 login -rwxr-xr-x 1 root root 88444 Feb 28 2019 ls -rwxr-xr-x 1 root root 67036 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 47168 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 43040 Feb 28 2019 mknod -rwxr-xr-x 1 root root 26552 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 26024 Jan 9 2019 more -rwsr-xr-x 1 root root 34268 Jan 9 2019 mount -rwxr-xr-x 1 root root 9688 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 84284 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 22416 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 26504 Feb 28 2019 readlink -rwxr-xr-x 1 root root 42968 Feb 28 2019 rm -rwxr-xr-x 1 root root 26496 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 14136 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 76012 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jul 31 20:27 sh -> dash -rwxr-xr-x 1 root root 22384 Feb 28 2019 sleep -rwxr-xr-x 1 root root 51124 Feb 28 2019 stty -rwsr-xr-x 1 root root 42472 Jan 9 2019 su -rwxr-xr-x 1 root root 22392 Feb 28 2019 sync -rwxr-xr-x 1 root root 283324 Apr 23 2019 tar -rwxr-xr-x 1 root root 9808 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 63464 Feb 28 2019 touch -rwxr-xr-x 1 root root 18260 Feb 28 2019 true -rwxr-xr-x 1 root root 9636 Apr 22 07:38 ulockmgr_server -rwsr-xr-x 1 root root 21976 Jan 9 2019 umount -rwxr-xr-x 1 root root 22380 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 88444 Feb 28 2019 vdir -rwxr-xr-x 1 root root 21980 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/17381/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: debhelper (>= 11), fftw-dev, gfortran, libccp4-dev, libmmdb2-dev, sfftw-dev, doxygen dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 18932 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 debhelper (>= 11); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on fftw-dev; however: Package fftw-dev is not installed. pbuilder-satisfydepends-dummy depends on gfortran; however: Package gfortran is not installed. pbuilder-satisfydepends-dummy depends on libccp4-dev; however: Package libccp4-dev is not installed. pbuilder-satisfydepends-dummy depends on libmmdb2-dev; however: Package libmmdb2-dev is not installed. pbuilder-satisfydepends-dummy depends on sfftw-dev; however: Package sfftw-dev is not installed. pbuilder-satisfydepends-dummy depends on doxygen; however: Package doxygen 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: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} doxygen{a} dwz{a} fftw-dev{a} fftw2{a} file{a} gettext{a} gettext-base{a} gfortran{a} gfortran-8{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libccp4-data{a} libccp4-dev{a} libccp4c0{a} libccp4f0{a} libclang1-6.0{a} libcroco3{a} libedit2{a} libelf1{a} libevent-2.1-6{a} libevent-core-2.1-6{a} libevent-pthreads-2.1-6{a} libfile-stripnondeterminism-perl{a} libgfortran-8-dev{a} libgfortran5{a} libglib2.0-0{a} libhwloc-plugins{a} libhwloc5{a} libibverbs1{a} libicu63{a} libllvm6.0{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libmmdb2-0{a} libmmdb2-dev{a} libncurses6{a} libnl-3-200{a} libnl-route-3-200{a} libopenmpi3{a} libpciaccess0{a} libpipeline1{a} libpmix2{a} libsigsegv2{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} ocl-icd-libopencl1{a} po-debconf{a} sensible-utils{a} sfftw-dev{a} sfftw2{a} The following packages are RECOMMENDED but will NOT be installed: curl ibverbs-providers libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx openmpi-bin shared-mime-info wget xdg-user-dirs 0 packages upgraded, 64 newly installed, 0 to remove and 0 not upgraded. Need to get 53.9 MB of archives. After unpacking 167 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main armhf libbsd0 armhf 0.9.1-2 [103 kB] Get: 2 http://deb.debian.org/debian buster/main armhf bsdmainutils armhf 11.1.2+b1 [186 kB] Get: 3 http://deb.debian.org/debian buster/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB] Get: 4 http://deb.debian.org/debian buster/main armhf groff-base armhf 1.22.4-3 [828 kB] Get: 5 http://deb.debian.org/debian buster/main armhf libpipeline1 armhf 1.5.1-2 [26.8 kB] Get: 6 http://deb.debian.org/debian buster/main armhf man-db armhf 2.8.5-2 [1240 kB] Get: 7 http://deb.debian.org/debian buster/main armhf sensible-utils all 0.0.12 [15.8 kB] Get: 8 http://deb.debian.org/debian buster/main armhf libmagic-mgc armhf 1:5.35-4+deb10u1 [242 kB] Get: 9 http://deb.debian.org/debian buster/main armhf libmagic1 armhf 1:5.35-4+deb10u1 [110 kB] Get: 10 http://deb.debian.org/debian buster/main armhf file armhf 1:5.35-4+deb10u1 [65.5 kB] Get: 11 http://deb.debian.org/debian buster/main armhf gettext-base armhf 0.19.8.1-9 [118 kB] Get: 12 http://deb.debian.org/debian buster/main armhf libsigsegv2 armhf 2.12-2 [32.1 kB] Get: 13 http://deb.debian.org/debian buster/main armhf m4 armhf 1.4.18-2 [190 kB] Get: 14 http://deb.debian.org/debian buster/main armhf autoconf all 2.69-11 [341 kB] Get: 15 http://deb.debian.org/debian buster/main armhf autotools-dev all 20180224.1 [77.0 kB] Get: 16 http://deb.debian.org/debian buster/main armhf automake all 1:1.16.1-4 [771 kB] Get: 17 http://deb.debian.org/debian buster/main armhf autopoint all 0.19.8.1-9 [434 kB] Get: 18 http://deb.debian.org/debian buster/main armhf libtool all 2.4.6-9 [547 kB] Get: 19 http://deb.debian.org/debian buster/main armhf dh-autoreconf all 19 [16.9 kB] Get: 20 http://deb.debian.org/debian buster/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 21 http://deb.debian.org/debian buster/main armhf libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 22 http://deb.debian.org/debian buster/main armhf dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 23 http://deb.debian.org/debian buster/main armhf libelf1 armhf 0.176-1.1 [158 kB] Get: 24 http://deb.debian.org/debian buster/main armhf dwz armhf 0.12-3 [72.0 kB] Get: 25 http://deb.debian.org/debian buster/main armhf libglib2.0-0 armhf 2.58.3-2+deb10u2 [1101 kB] Get: 26 http://deb.debian.org/debian buster/main armhf libicu63 armhf 63.1-6+deb10u1 [8005 kB] Get: 27 http://deb.debian.org/debian buster/main armhf libxml2 armhf 2.9.4+dfsg1-7+b3 [595 kB] Get: 28 http://deb.debian.org/debian buster/main armhf libcroco3 armhf 0.6.12-3 [133 kB] Get: 29 http://deb.debian.org/debian buster/main armhf libncurses6 armhf 6.1+20181013-2+deb10u2 [79.8 kB] Get: 30 http://deb.debian.org/debian buster/main armhf gettext armhf 0.19.8.1-9 [1242 kB] Get: 31 http://deb.debian.org/debian buster/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 32 http://deb.debian.org/debian buster/main armhf po-debconf all 1.0.21 [248 kB] Get: 33 http://deb.debian.org/debian buster/main armhf debhelper all 12.1.1 [1016 kB] Get: 34 http://deb.debian.org/debian buster/main armhf libedit2 armhf 3.1-20181209-1 [79.5 kB] Get: 35 http://deb.debian.org/debian buster/main armhf libllvm6.0 armhf 1:6.0.1-10 [13.1 MB] Get: 36 http://deb.debian.org/debian buster/main armhf libclang1-6.0 armhf 1:6.0.1-10 [6029 kB] Get: 37 http://deb.debian.org/debian buster/main armhf doxygen armhf 1.8.13-10 [3568 kB] Get: 38 http://deb.debian.org/debian buster/main armhf libevent-2.1-6 armhf 2.1.8-stable-4 [159 kB] Get: 39 http://deb.debian.org/debian buster/main armhf libevent-core-2.1-6 armhf 2.1.8-stable-4 [118 kB] Get: 40 http://deb.debian.org/debian buster/main armhf libevent-pthreads-2.1-6 armhf 2.1.8-stable-4 [47.6 kB] Get: 41 http://deb.debian.org/debian buster/main armhf libgfortran5 armhf 8.3.0-6 [213 kB] Get: 42 http://deb.debian.org/debian buster/main armhf libltdl7 armhf 2.4.6-9 [387 kB] Get: 43 http://deb.debian.org/debian buster/main armhf libhwloc5 armhf 1.11.12-3 [87.6 kB] Get: 44 http://deb.debian.org/debian buster/main armhf libnl-3-200 armhf 3.4.0-1 [55.6 kB] Get: 45 http://deb.debian.org/debian buster/main armhf libnl-route-3-200 armhf 3.4.0-1 [136 kB] Get: 46 http://deb.debian.org/debian buster/main armhf libibverbs1 armhf 22.1-1 [44.1 kB] Get: 47 http://deb.debian.org/debian buster/main armhf libpciaccess0 armhf 0.14-1 [51.0 kB] Get: 48 http://deb.debian.org/debian buster/main armhf ocl-icd-libopencl1 armhf 2.2.12-2 [35.6 kB] Get: 49 http://deb.debian.org/debian buster/main armhf libhwloc-plugins armhf 1.11.12-3 [15.7 kB] Get: 50 http://deb.debian.org/debian buster/main armhf libpmix2 armhf 3.1.2-3 [449 kB] Get: 51 http://deb.debian.org/debian buster/main armhf libopenmpi3 armhf 3.1.3-11 [1890 kB] Get: 52 http://deb.debian.org/debian buster/main armhf fftw2 armhf 2.1.5-4.2+b1 [248 kB] Get: 53 http://deb.debian.org/debian buster/main armhf fftw-dev armhf 2.1.5-4.2+b1 [268 kB] Get: 54 http://deb.debian.org/debian buster/main armhf libgfortran-8-dev armhf 8.3.0-6 [260 kB] Get: 55 http://deb.debian.org/debian buster/main armhf gfortran-8 armhf 8.3.0-6 [7219 kB] Get: 56 http://deb.debian.org/debian buster/main armhf gfortran armhf 4:8.3.0-1 [1424 B] Get: 57 http://deb.debian.org/debian buster/main armhf libccp4-data all 6.5.1-1 [61.3 kB] Get: 58 http://deb.debian.org/debian buster/main armhf libccp4c0 armhf 6.5.1-1+b1 [75.2 kB] Get: 59 http://deb.debian.org/debian buster/main armhf libmmdb2-0 armhf 2.0.5-1 [272 kB] Get: 60 http://deb.debian.org/debian buster/main armhf libccp4f0 armhf 6.5.1-1+b1 [210 kB] Get: 61 http://deb.debian.org/debian buster/main armhf libccp4-dev armhf 6.5.1-1+b1 [42.7 kB] Get: 62 http://deb.debian.org/debian buster/main armhf libmmdb2-dev armhf 2.0.5-1 [91.9 kB] Get: 63 http://deb.debian.org/debian buster/main armhf sfftw2 armhf 2.1.5-4.2+b1 [236 kB] Get: 64 http://deb.debian.org/debian buster/main armhf sfftw-dev armhf 2.1.5-4.2+b1 [257 kB] Fetched 53.9 MB in 9s (5869 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0: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 ... 18932 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_armhf.deb ... Unpacking libbsd0:armhf (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_armhf.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../02-libuchardet0_0.0.6-3_armhf.deb ... Unpacking libuchardet0:armhf (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_armhf.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../04-libpipeline1_1.5.1-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-2_armhf.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../07-libmagic-mgc_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../08-libmagic1_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking libmagic1:armhf (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../09-file_1%3a5.35-4+deb10u1_armhf.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../10-gettext-base_0.19.8.1-9_armhf.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../11-libsigsegv2_2.12-2_armhf.deb ... Unpacking libsigsegv2:armhf (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.18-2_armhf.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. 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Unpacking libnl-route-3-200:armhf (3.4.0-1) ... Selecting previously unselected package libibverbs1:armhf. Preparing to unpack .../45-libibverbs1_22.1-1_armhf.deb ... Unpacking libibverbs1:armhf (22.1-1) ... Selecting previously unselected package libpciaccess0:armhf. Preparing to unpack .../46-libpciaccess0_0.14-1_armhf.deb ... Unpacking libpciaccess0:armhf (0.14-1) ... Selecting previously unselected package ocl-icd-libopencl1:armhf. Preparing to unpack .../47-ocl-icd-libopencl1_2.2.12-2_armhf.deb ... Unpacking ocl-icd-libopencl1:armhf (2.2.12-2) ... Selecting previously unselected package libhwloc-plugins:armhf. Preparing to unpack .../48-libhwloc-plugins_1.11.12-3_armhf.deb ... Unpacking libhwloc-plugins:armhf (1.11.12-3) ... Selecting previously unselected package libpmix2:armhf. Preparing to unpack .../49-libpmix2_3.1.2-3_armhf.deb ... Unpacking libpmix2:armhf (3.1.2-3) ... Selecting previously unselected package libopenmpi3:armhf. 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Setting up libevent-core-2.1-6:armhf (2.1.8-stable-4) ... Setting up libgfortran5:armhf (8.3.0-6) ... Setting up libevent-2.1-6:armhf (2.1.8-stable-4) ... Setting up sensible-utils (0.0.12) ... Setting up ocl-icd-libopencl1:armhf (2.2.12-2) ... Setting up libuchardet0:armhf (0.0.6-3) ... Setting up libnl-3-200:armhf (3.4.0-1) ... Setting up libbsd0:armhf (0.9.1-2) ... Setting up libelf1:armhf (0.176-1.1) ... Setting up libxml2:armhf (2.9.4+dfsg1-7+b3) ... Setting up libccp4f0:armhf (6.5.1-1+b1) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libgfortran-8-dev:armhf (8.3.0-6) ... Setting up libevent-pthreads-2.1-6:armhf (2.1.8-stable-4) ... Setting up libccp4-dev:armhf (6.5.1-1+b1) ... Setting up libtool (2.4.6-9) ... Setting up libhwloc5:armhf (1.11.12-3) ... Setting up gfortran-8 (8.3.0-6) ... Setting up libedit2:armhf (3.1-20181209-1) ... Setting up m4 (1.4.18-2) ... Setting up libhwloc-plugins:armhf (1.11.12-3) ... Setting up libllvm6.0:armhf (1:6.0.1-10) ... Setting up gfortran (4:8.3.0-1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libclang1-6.0:armhf (1:6.0.1-10) ... Setting up libnl-route-3-200:armhf (3.4.0-1) ... Setting up doxygen (1.8.13-10) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libcroco3:armhf (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libibverbs1:armhf (22.1-1) ... Setting up gettext (0.19.8.1-9) ... Setting up libpmix2:armhf (3.1.2-3) ... Setting up libopenmpi3:armhf (3.1.3-11) ... Setting up sfftw2 (2.1.5-4.2+b1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up fftw2 (2.1.5-4.2+b1) ... Setting up sfftw-dev (2.1.5-4.2+b1) ... Setting up fftw-dev (2.1.5-4.2+b1) ... Setting up po-debconf (1.0.21) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/clipper-2.1.20160809/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package clipper dpkg-buildpackage: info: source version 2.1.20160809-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean --with autoreconf --ddeb-migration='libclipper2-dbg (<< 2.1.20160809-1~)' dh_auto_clean "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" dh_autoreconf_clean "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" debian/rules override_dh_clean make[1]: Entering directory '/build/clipper-2.1.20160809' rm -f doxy.core.tag rm -rf doc/ dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/libclipper-dev.substvars debian/libclipper2.substvars debian/libclipper-doc.substvars debian/files rm -fr -- debian/libclipper-dev/ debian/tmp/ debian/libclipper2/ debian/libclipper-doc/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) make[1]: Leaving directory '/build/clipper-2.1.20160809' debian/rules build dh build --with autoreconf --ddeb-migration='libclipper2-dbg (<< 2.1.20160809-1~)' dh_update_autotools_config "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d debian/.debhelper/bucket/files cp -an --reflink=auto build-aux/config.guess debian/.debhelper/bucket/files/4676029966e14b0a9bfc430963a97196ea50451e4aa3ff23c41256b0046f6efe.tmp mv debian/.debhelper/bucket/files/4676029966e14b0a9bfc430963a97196ea50451e4aa3ff23c41256b0046f6efe.tmp debian/.debhelper/bucket/files/4676029966e14b0a9bfc430963a97196ea50451e4aa3ff23c41256b0046f6efe cp -f /usr/share/misc/config.guess ./build-aux/config.guess cp -an --reflink=auto build-aux/config.sub debian/.debhelper/bucket/files/4add30a10b137a5a4667e12868fb4783e385dbf865cfb7017b205321bd1a2f39.tmp mv debian/.debhelper/bucket/files/4add30a10b137a5a4667e12868fb4783e385dbf865cfb7017b205321bd1a2f39.tmp debian/.debhelper/bucket/files/4add30a10b137a5a4667e12868fb4783e385dbf865cfb7017b205321bd1a2f39 cp -f /usr/share/misc/config.sub ./build-aux/config.sub dh_autoreconf "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.before grep -q ^XDT_ configure.ac autoreconf -f -i libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'build-aux'. libtoolize: copying file 'build-aux/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:10: installing 'build-aux/compile' configure.ac:8: installing 'build-aux/missing' clipper/Makefile.am: installing 'build-aux/depcomp' find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.after debian/rules override_dh_auto_configure make[1]: Entering directory '/build/clipper-2.1.20160809' dh_auto_configure -- --enable-mmdb --enable-minimol --enable-cif --enable-ccp4 --enable-shared --disable-static --enable-fortran ./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --libexecdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-mmdb --enable-minimol --enable-cif --enable-ccp4 --enable-shared --disable-static --enable-fortran checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking for ar... ar checking the archiver (ar) interface... ar checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether to enable maintainer-specific portions of Makefiles... no checking for g77... no checking for xlf... no checking for f77... f77 checking whether we are using the GNU Fortran 77 compiler... yes checking whether f77 accepts -g... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for f77 option to produce PIC... -fPIC checking if f77 PIC flag -fPIC works... yes checking if f77 static flag -static works... yes checking if f77 supports -c -o file.o... yes checking if f77 supports -c -o file.o... (cached) yes checking whether the f77 linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking how to get verbose linking output from f77... -v checking for Fortran 77 libraries of f77... -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lgfortran -lm checking for dummy main to link with Fortran 77 libraries... none checking for Fortran 77 name-mangling scheme... lower case, underscore, no extra underscore checking for library containing cos... -lm checking for prefixed single-precision FFTW2 (sfftw.h)... yes checking for the pthreads library -lpthreads... no checking for the pthreads library -lpthread... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking if more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking for MMDB_CCIF_Init in -lmmdb2... yes checking mmdb2/mmdb_manager.h usability... yes checking mmdb2/mmdb_manager.h presence... yes checking for mmdb2/mmdb_manager.h... yes checking for ccp4_banner in -lccp4c... yes checking ccp4/ccp4_general.h usability... yes checking ccp4/ccp4_general.h presence... yes checking for ccp4/ccp4_general.h... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating clipper/Makefile config.status: creating clipper/core/Makefile config.status: creating clipper/contrib/Makefile config.status: creating examples/Makefile config.status: creating clipper.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands Configuration Summary ------------------------------ core: yes contrib: yes phs: yes cns: yes mmdb: yes minimol: yes cif: yes ccp4: yes cctbx: no fortran: yes make[1]: Leaving directory '/build/clipper-2.1.20160809' rm -f debian/libclipper-dev.debhelper.log debian/libclipper-doc.debhelper.log debian/libclipper2.debhelper.log debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/clipper-2.1.20160809' doxygen debian/Doxyfile warning: Tag `SYMBOL_CACHE_SIZE' at line 336 of file `debian/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag `XML_SCHEMA' at line 1404 of file `debian/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: Tag `XML_DTD' at line 1410 of file `debian/Doxyfile' has become obsolete. To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u" warning: doxygen no longer ships with the FreeSans font. You may want to clear or change DOT_FONTNAME. Otherwise you run the risk that the wrong font is being used for dot generated graphs. /build/clipper-2.1.20160809/clipper/core/cell.h:1 warning: the name `lib/cell.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_instance.h:1 warning: the name `lib/clipper_instance.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_memory.h:1 warning: the name `lib/clipper_memory.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_message.h:1 warning: the name `lib/clipper_message.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_precision.h:1 warning: the name `lib/clipper_precision.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_stats.h:1 warning: the name `lib/clipper_stats.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_sysdep.h:1 warning: the name `lib/clipper_sysdep.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_test.h:1 warning: the name `lib/clipper_test.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_thread.h:1 warning: the name `lib/clipper_thread.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_types.h:1 warning: the name `lib/clipper_types.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_util.h:1 warning: the name `lib/clipper_util.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/container.h:1 warning: the name `lib/container.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/container_hkl.h:1 warning: the name `lib/container_hkl.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/container_map.h:1 warning: the name `lib/container_map.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/container_types.h:1 warning: the name `lib/container_types.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/coords.h:1 warning: the name `lib/coords.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/derivs.h:1 warning: the name `lib/derivs.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/fftmap.h:1 warning: the name `lib/fftmap.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.h:1 warning: the name `lib/fftmap_sparse.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/hkl_compute.h:1 warning: the name `lib/hkl_compute.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/hkl_data.h:1 warning: the name `lib/hkl_data.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/hkl_datatypes.h:1 warning: the name `lib/hkl_datatypes.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/hkl_info.h:1 warning: the name `lib/hkl_info.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/hkl_lookup.h:1 warning: the name `lib/hkl_lookup.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/hkl_operators.h:1 warning: the name `lib/hkl_operators.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/map_interp.h:1 warning: the name `lib/map_interp.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/map_utils.h:1 warning: the name `lib/map_utils.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/nxmap.h:1 warning: the name `lib/nxmap.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/nxmap_operator.h:1 warning: the name `lib/nxmap_operator.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/resol_basisfn.h:1 warning: the name `lib/resol_basisfn.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/resol_fn.h:1 warning: the name `lib/resol_fn.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/resol_targetfn.h:1 warning: the name `lib/resol_targetfn.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/rotation.h:1 warning: the name `lib/rotation.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/spacegroup.h:1 warning: the name `lib/spacegroup.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/symop.h:1 warning: the name `lib/symop.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/test_core.h:1 warning: the name `lib/test_core.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/test_data.h:1 warning: the name `lib/test_data.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/xmap.h:1 warning: the name `lib/xmap.h' supplied as the second argument in the \file statement is not an input file /build/clipper-2.1.20160809/clipper/core/clipper_util.cpp:165 warning: no matching class member found for template void clipper::Util::swap< ftype32 >(float &a, ftype32 &b) Possible candidates: 'template < T > static void clipper::Util::swap(T &a, T &b) 'template < T > static void clipper::Util::swap(T &a, T &b, T &c) /build/clipper-2.1.20160809/clipper/core/clipper_util.cpp:166 warning: no matching class member found for template void clipper::Util::swap< ftype32 >(float &a, ftype32 &b, ftype32 &c) Possible candidates: 'template < T > static void clipper::Util::swap(T &a, T &b) 'template < T > static void clipper::Util::swap(T &a, T &b, T &c) /build/clipper-2.1.20160809/clipper/core/clipper_util.cpp:173 warning: no matching class member found for template void clipper::Util::swap< ftype64 >(double &a, ftype64 &b) Possible candidates: 'template < T > static void clipper::Util::swap(T &a, T &b) 'template < T > static void clipper::Util::swap(T &a, T &b, T &c) /build/clipper-2.1.20160809/clipper/core/clipper_util.cpp:174 warning: no matching class member found for template void clipper::Util::swap< ftype64 >(double &a, ftype64 &b, ftype64 &c) Possible candidates: 'template < T > static void clipper::Util::swap(T &a, T &b) 'template < T > static void clipper::Util::swap(T &a, T &b, T &c) /build/clipper-2.1.20160809/clipper/core/clipper_util.cpp:181 warning: no matching class member found for template void clipper::Util::swap< int >(int &a, int &b) Possible candidates: 'template < T > static void clipper::Util::swap(T &a, T &b) 'template < T > static void clipper::Util::swap(T &a, T &b, T &c) /build/clipper-2.1.20160809/clipper/core/clipper_util.cpp:182 warning: no matching class member found for template void clipper::Util::swap< int >(int &a, int &b, int &c) Possible candidates: 'template < T > static void clipper::Util::swap(T &a, T &b) 'template < T > static void clipper::Util::swap(T &a, T &b, T &c) /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:425 warning: no matching class member found for template void clipper::FFTmap::get_recip_data< ftype32 >(const clipper::HKL &rfl, clipper::datatypes::F_phi< float > &fphi) const Possible candidates: 'template < T > void clipper::FFTmap::get_recip_data(const HKL &rfl, datatypes::F_phi< T > &fphi) const datatypes::F_phi< ffttype > clipper::FFTmap::get_recip_data(const HKL &rfl) const /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:427 warning: no matching class member found for template void clipper::FFTmap::get_real_data< ftype32 >(const clipper::Coord_grid &c, float &datum) const Possible candidates: 'template < T > void clipper::FFTmap::get_real_data(const Coord_grid &c, T &datum) const const ffttype & clipper::FFTmap::get_real_data(const Coord_grid &c) const /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:429 warning: no matching class member found for template void clipper::FFTmap::get_recip_data< ftype64 >(const clipper::HKL &rfl, clipper::datatypes::F_phi< double > &fphi) const Possible candidates: 'template < T > void clipper::FFTmap::get_recip_data(const HKL &rfl, datatypes::F_phi< T > &fphi) const datatypes::F_phi< ffttype > clipper::FFTmap::get_recip_data(const HKL &rfl) const /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:431 warning: no matching class member found for template void clipper::FFTmap::get_real_data< ftype64 >(const clipper::Coord_grid &c, double &datum) const Possible candidates: 'template < T > void clipper::FFTmap::get_real_data(const Coord_grid &c, T &datum) const const ffttype & clipper::FFTmap::get_real_data(const Coord_grid &c) const /build/clipper-2.1.20160809/dox/clipper_contrib.dox:1 warning: found more than one \mainpage comment block! (first occurrence: /build/clipper-2.1.20160809/dox/clipper.dox, line 2), Skipping current block! /build/clipper-2.1.20160809/dox/clipper_minimol.dox:1 warning: found more than one \mainpage comment block! (first occurrence: /build/clipper-2.1.20160809/dox/clipper.dox, line 2), Skipping current block! /build/clipper-2.1.20160809/dox/clipper_mmdb.dox:1 warning: found more than one \mainpage comment block! (first occurrence: /build/clipper-2.1.20160809/dox/clipper.dox, line 2), Skipping current block! /build/clipper-2.1.20160809/dox/clipper_mmdbold.dox:1 warning: found more than one \mainpage comment block! (first occurrence: /build/clipper-2.1.20160809/dox/clipper.dox, line 2), Skipping current block! /build/clipper-2.1.20160809/dox/develop.dox:167 warning: Illegal command width as part of a \image /build/clipper-2.1.20160809/dox/installation.dox:18 warning: included file install.csh is not found. Check your EXAMPLE_PATH /build/clipper-2.1.20160809/clipper/core/atomsf.cpp:586 warning: argument 'The' of command @param is not found in the argument list of clipper::AtomShapeFn::rho(const Coord_orth &xyz) const /build/clipper-2.1.20160809/clipper/core/atomsf.cpp:631 warning: Found unknown command `\patam' /build/clipper-2.1.20160809/clipper/core/atomsf.h:97 warning: The following parameters of clipper::AtomShapeFn::rho_grad(const Coord_orth &xyz, ftype &rho, std::vector< ftype > &grad) const are not documented: parameter 'rho' /build/clipper-2.1.20160809/clipper/core/atomsf.cpp:713 warning: Found unknown command `\patam' /build/clipper-2.1.20160809/clipper/core/atomsf.h:99 warning: The following parameters of clipper::AtomShapeFn::rho_curv(const Coord_orth &xyz, ftype &rho, std::vector< ftype > &grad, Matrix< ftype > &curv) const are not documented: parameter 'rho' /build/clipper-2.1.20160809/clipper/core/atomsf.cpp:615 warning: argument 'invresolsq' of command @param is not found in the argument list of clipper::AtomShapeFn::rho(const ftype &rsq) const /build/clipper-2.1.20160809/clipper/core/atomsf.cpp:615 warning: argument 'The' of command @param is not found in the argument list of clipper::AtomShapeFn::rho(const ftype &rsq) const /build/clipper-2.1.20160809/clipper/core/atomsf.h:107 warning: The following parameters of clipper::AtomShapeFn::rho(const ftype &rsq) const are not documented: parameter 'rsq' /build/clipper-2.1.20160809/clipper/core/container_types.cpp:104 warning: argument 'rate_' of command @param is not found in the argument list of clipper::CGrid_sampling::init(const Spacegroup &spacegroup, const Cell &cell, const Resolution &resolution, const ftype rate) /build/clipper-2.1.20160809/clipper/core/container_types.h:134 warning: The following parameters of clipper::CGrid_sampling::init(const Spacegroup &spacegroup, const Cell &cell, const Resolution &resolution, const ftype rate) are not documented: parameter 'rate' /build/clipper-2.1.20160809/clipper/core/container_hkl.h:67 warning: The following parameters of clipper::CHKL_info::CHKL_info(const String name="", const Spacegroup &spacegroup=NullSpacegroup, const Cell &cell=NullCell, const Resolution &resolution=NullResolution, const bool &generate=false) are not documented: parameter 'name' /build/clipper-2.1.20160809/clipper/core/container_hkl.h:73 warning: The following parameters of clipper::CHKL_info::CHKL_info(Container &parent, const String name="", const bool &generate=false) are not documented: parameter 'generate' /build/clipper-2.1.20160809/clipper/core/container_map.h:180 warning: argument 'grid' of command @param is not found in the argument list of clipper::CNXmap_operator< T >::init(const Cell &cell, const Grid_sampling &grid_sampling, const NXmap< T > &nxmap, const RTop_orth &nxop) /build/clipper-2.1.20160809/clipper/core/container_map.h:101 warning: The following parameters of clipper::CNXmap_operator::init(const Cell &cell, const Grid_sampling &grid_sampling, const NXmap< T > &nxmap, const RTop_orth &nxop) are not documented: parameter 'grid_sampling' /build/clipper-2.1.20160809/clipper/core/coords.h:279 warning: The following parameters of clipper::Coord_grid::deindex(const Grid &g, const int &index) are not documented: parameter 'index' /build/clipper-2.1.20160809/clipper/core/container_map.h:126 warning: argument 'name' of command @param is not found in the argument list of clipper::CXmap< T >::init(const Spacegroup &spacegroup, const Cell &cell, const Grid_sampling &grid_sampling) /build/clipper-2.1.20160809/clipper/core/container_map.h:126 warning: argument 'grid' of command @param is not found in the argument list of clipper::CXmap< T >::init(const Spacegroup &spacegroup, const Cell &cell, const Grid_sampling &grid_sampling) /build/clipper-2.1.20160809/clipper/core/container_map.h:66 warning: The following parameters of clipper::CXmap::init(const Spacegroup &spacegroup, const Cell &cell, const Grid_sampling &grid_sampling) are not documented: parameter 'cell' parameter 'grid_sampling' /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:280 warning: argument 'precalc' of command @param is not found in the argument list of clipper::FFTmap::FFTmap(const Spacegroup &spacegroup, const Cell &cell, const Grid_sampling grid_sam, const FFTtype type=Default) /build/clipper-2.1.20160809/clipper/core/fftmap.h:171 warning: The following parameters of clipper::FFTmap::FFTmap(const Spacegroup &spacegroup, const Cell &cell, const Grid_sampling grid_sam, const FFTtype type=Default) are not documented: parameter 'type' /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:296 warning: argument 'precalc' of command @param is not found in the argument list of clipper::FFTmap::init(const Spacegroup &spacegroup, const Cell &cell, const Grid_sampling grid_sam, const FFTtype type=Default) /build/clipper-2.1.20160809/clipper/core/fftmap.h:173 warning: The following parameters of clipper::FFTmap::init(const Spacegroup &spacegroup, const Cell &cell, const Grid_sampling grid_sam, const FFTtype type=Default) are not documented: parameter 'type' /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:145 warning: argument 'Scale' of command @param is not found in the argument list of clipper::FFTmap_p1::fft_h_to_x(const ftype &scale) /build/clipper-2.1.20160809/clipper/core/fftmap.h:104 warning: The following parameters of clipper::FFTmap_p1::fft_h_to_x(const ftype &scale) are not documented: parameter 'scale' /build/clipper-2.1.20160809/clipper/core/fftmap.cpp:177 warning: argument 'Scale' of command @param is not found in the argument list of clipper::FFTmap_p1::fft_x_to_h(const ftype &scale) /build/clipper-2.1.20160809/clipper/core/fftmap.h:106 warning: The following parameters of clipper::FFTmap_p1::fft_x_to_h(const ftype &scale) are not documented: parameter 'scale' /build/clipper-2.1.20160809/clipper/core/fftmap.h:111 warning: The following parameters of clipper::FFTmap_p1::set_hkl(const HKL &hkl, const std::complex< ffttype > &f) are not documented: parameter 'f' /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.cpp:66 warning: explicit link request to 'Estimate' could not be resolved /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.cpp:125 warning: explicit link request to 'Estimate' could not be resolved /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.cpp:248 warning: explicit link request to 'Estimate' could not be resolved /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.cpp:279 warning: argument 'uvw' of command @param is not found in the argument list of clipper::FFTmap_sparse_p1_xh::require_cplx_data(const Coord_grid &hkl) /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.h:143 warning: The following parameters of clipper::FFTmap_sparse_p1_xh::require_cplx_data(const Coord_grid &hkl) are not documented: parameter 'hkl' /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.cpp:284 warning: argument 'uvw' of command @param is not found in the argument list of clipper::FFTmap_sparse_p1_xh::cplx_data(const Coord_grid &hkl) const /build/clipper-2.1.20160809/clipper/core/fftmap_sparse.h:146 warning: The following parameters of clipper::FFTmap_sparse_p1_xh::cplx_data(const Coord_grid &hkl) const are not documented: parameter 'hkl' /build/clipper-2.1.20160809/clipper/core/coords.h:703 warning: argument 'hkl' of command @param is not found in the argument list of clipper::HKL::sym_phase_shift(const Symop &op) const /build/clipper-2.1.20160809/clipper/core/coords.h:170 warning: The following parameters of clipper::HKL::sym_phase_shift(const Symop &op) const are not documented: parameter 'op' /build/clipper-2.1.20160809/clipper/core/hkl_data.h:507 warning: argument 'data' of command @param is not found in the argument list of clipper::HKL_data< T >::set_data(const HKL &hkl, const T &data_) /build/clipper-2.1.20160809/clipper/core/hkl_data.h:297 warning: The following parameters of clipper::HKL_data::set_data(const HKL &hkl, const T &data_) are not documented: parameter 'data_' /build/clipper-2.1.20160809/clipper/core/hkl_info.h:68 warning: The following parameters of clipper::HKL_info::HKL_info(const Spacegroup &spacegroup, const Cell &cell, const Resolution &resolution, const bool &generate=false) are not documented: parameter 'generate' /build/clipper-2.1.20160809/clipper/core/map_interp.h:112 warning: The following parameters of clipper::Interp_cubic::interp(const M &map, const Coord_map &pos, T &val) are not documented: parameter 'map' parameter 'val' /build/clipper-2.1.20160809/clipper/core/map_interp.h:113 warning: The following parameters of clipper::Interp_cubic::interp_grad(const M &map, const Coord_map &pos, T &val, Grad_map< T > &grad) are not documented: parameter 'map' /build/clipper-2.1.20160809/clipper/core/map_interp.h:114 warning: The following parameters of clipper::Interp_cubic::interp_curv(const M &map, const Coord_map &pos, T &val, Grad_map< T > &grad, Curv_map< T > &curv) are not documented: parameter 'map' parameter 'curv' /build/clipper-2.1.20160809/clipper/core/map_interp.h:91 warning: The following parameters of clipper::Interp_linear::interp(const M &map, const Coord_map &pos, T &val) are not documented: parameter 'val' /build/clipper-2.1.20160809/clipper/core/map_interp.h:70 warning: The following parameters of clipper::Interp_nearest::interp(const M &map, const Coord_map &pos, T &val) are not documented: parameter 'val' /build/clipper-2.1.20160809/clipper/core/map_utils.cpp:55 warning: Found unknown command `\params' /build/clipper-2.1.20160809/clipper/core/map_utils.cpp:56 warning: Found unknown command `\params' /build/clipper-2.1.20160809/clipper/core/map_utils.cpp:64 warning: Found unknown command `\params' /build/clipper-2.1.20160809/clipper/core/map_utils.cpp:65 warning: Found unknown command `\params' /build/clipper-2.1.20160809/clipper/core/map_utils.h:113 warning: Found unknown command `\params' /build/clipper-2.1.20160809/clipper/core/nxmap.h:384 warning: argument 'curv' of command @param is not found in the argument list of clipper::NXmap< T >::interp_grad(const Coord_map &pos, T &val, Grad_map< T > &grad) const /build/clipper-2.1.20160809/clipper/core/resol_fn.cpp:141 warning: argument 'damp_' of command @param is not found in the argument list of clipper::ResolutionFn::ResolutionFn(const HKL_info &hkl_info, const BasisFn_base &basisfn, const TargetFn_base &targetfn, const std::vector< ftype > ¶ms, const ftype damp=0.0, const bool debug=false) /build/clipper-2.1.20160809/clipper/core/resol_fn.h:190 warning: The following parameters of clipper::ResolutionFn::ResolutionFn(const HKL_info &hkl_info, const BasisFn_base &basisfn, const TargetFn_base &targetfn, const std::vector< ftype > ¶ms, const ftype damp=0.0, const bool debug=false) are not documented: parameter 'damp' parameter 'debug' /build/clipper-2.1.20160809/clipper/core/resol_fn.cpp:200 warning: argument 'damp_' of command @param is not found in the argument list of clipper::ResolutionFn_nonlinear::ResolutionFn_nonlinear(const HKL_info &hkl_info, const BasisFn_base &basisfn, const TargetFn_base &targetfn, const std::vector< ftype > ¶ms, const ftype damp=0.0, const bool debug=false) /build/clipper-2.1.20160809/clipper/core/resol_fn.h:238 warning: The following parameters of clipper::ResolutionFn_nonlinear::ResolutionFn_nonlinear(const HKL_info &hkl_info, const BasisFn_base &basisfn, const TargetFn_base &targetfn, const std::vector< ftype > ¶ms, const ftype damp=0.0, const bool debug=false) are not documented: parameter 'params' parameter 'damp' parameter 'debug' /build/clipper-2.1.20160809/clipper/core/spacegroup.cpp:462 warning: argument 'name' of command @param is not found in the argument list of clipper::Spgr_descr::Spgr_descr(const String &symb, TYPE type=Unknown) /build/clipper-2.1.20160809/clipper/core/spacegroup.h:80 warning: The following parameters of clipper::Spgr_descr::Spgr_descr(const String &symb, TYPE type=Unknown) are not documented: parameter 'symb' /build/clipper-2.1.20160809/clipper/core/symop.cpp:118 warning: argument 'mat' of command @param is not found in the argument list of clipper::Symop::Symop(const RTop<> &rt) /build/clipper-2.1.20160809/clipper/core/symop.h:98 warning: The following parameters of clipper::Symop::Symop(const RTop<> &rt) are not documented: parameter 'rt' /build/clipper-2.1.20160809/clipper/core/symop.cpp:215 warning: argument 'code' of command @param is not found in the argument list of clipper::Symop_code::symop() const /build/clipper-2.1.20160809/clipper/core/symop.cpp:231 warning: argument 'code' of command @param is not found in the argument list of clipper::Symop_code::isymop() const /build/clipper-2.1.20160809/clipper/core/resol_targetfn.h:86 warning: Found unknown command `\Note' /build/clipper-2.1.20160809/clipper/core/resol_targetfn.h:62 warning: Found unknown command `\Note' /build/clipper-2.1.20160809/clipper/core/coords.cpp:626 warning: argument 'u' of command @param is not found in the argument list of clipper::U_aniso_frac::transform(const RTop_frac &op) const /build/clipper-2.1.20160809/clipper/core/coords.h:469 warning: The following parameters of clipper::U_aniso_frac::transform(const RTop_frac &op) const are not documented: parameter 'op' /build/clipper-2.1.20160809/clipper/core/coords.cpp:614 warning: argument 'u' of command @param is not found in the argument list of clipper::U_aniso_orth::transform(const RTop_orth &op) const /build/clipper-2.1.20160809/clipper/core/coords.h:445 warning: The following parameters of clipper::U_aniso_orth::transform(const RTop_orth &op) const are not documented: parameter 'op' /build/clipper-2.1.20160809/clipper/core/xmap.h:403 warning: The following parameters of clipper::Xmap::fft_from(const H &fphidata, const FFTtype type=Default) are not documented: parameter 'type' /build/clipper-2.1.20160809/clipper/core/xmap.h:405 warning: The following parameters of clipper::Xmap::fft_to(H &fphidata, const FFTtype type=Default) const are not documented: parameter 'type' sh: 1: latex: not found error: Problems running latex. Check your installation or look for typos in _formulas.tex and check _formulas.log! sh: 1: dvips: not found error: Problems running dvips. Check your installation! make[1]: Leaving directory '/build/clipper-2.1.20160809' dh_auto_build "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" -Nlibclipper-doc make -j3 make[1]: Entering directory '/build/clipper-2.1.20160809' make all-recursive make[2]: Entering directory '/build/clipper-2.1.20160809' Making all in clipper make[3]: Entering directory '/build/clipper-2.1.20160809/clipper' Making all in core make[4]: Entering directory '/build/clipper-2.1.20160809/clipper/core' /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-atomsf.lo `test -f 'atomsf.cpp' || echo './'`atomsf.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-coords.lo `test -f 'coords.cpp' || echo './'`coords.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-nxmap_operator.lo `test -f 'nxmap_operator.cpp' || echo './'`nxmap_operator.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c atomsf.cpp -fPIC -DPIC -o .libs/libclipper_core_la-atomsf.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c coords.cpp -fPIC -DPIC -o .libs/libclipper_core_la-coords.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c nxmap_operator.cpp -fPIC -DPIC -o .libs/libclipper_core_la-nxmap_operator.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from atomsf.h:50, from atomsf.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from coords.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from fftmap.h:49, from xmap.h:49, from nxmap_operator.h:48, from nxmap_operator.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from atomsf.h:50, from atomsf.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::Mat33sym<>; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from atomsf.h:50, from atomsf.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::AtomShapeFn::rho_grad(const clipper::Coord_orth&, clipper::ftype&, std::vector&) const': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::AtomShapeFn::rho_curv(const clipper::Coord_orth&, clipper::ftype&, std::vector&, clipper::Matrix&) const': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::AtomShapeFn::init(const clipper::Coord_orth&, const clipper::String&, const clipper::U_aniso_orth&, clipper::ftype)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::AtomShapeFn::rho_grad(const clipper::Coord_orth&, std::vector&) const': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-cell.lo `test -f 'cell.cpp' || echo './'`cell.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c cell.cpp -fPIC -DPIC -o .libs/libclipper_core_la-cell.o In file included from clipper_types.h:49, from cell.h:50, from cell.cpp:44: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-derivs.lo `test -f 'derivs.cpp' || echo './'`derivs.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c derivs.cpp -fPIC -DPIC -o .libs/libclipper_core_la-derivs.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from derivs.h:49, from derivs.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from coords.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-ramachandran.lo `test -f 'ramachandran.cpp' || echo './'`ramachandran.cpp In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from coords.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector clipper::Matrix::eigen(bool) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c ramachandran.cpp -fPIC -DPIC -o .libs/libclipper_core_la-ramachandran.o In file included from clipper_types.h:49, from ramachandran.h:49, from ramachandran.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::RTop_orth::RTop_orth(const std::vector&, const std::vector&)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::RTop_orth::RTop_orth(const std::vector&, const std::vector&, const std::vector&)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from ramachandran.h:49, from ramachandran.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from ramachandran.h:49, from ramachandran.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::Prob_phi_2d::init(const int&)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_instance.lo `test -f 'clipper_instance.cpp' || echo './'`clipper_instance.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-fftmap.lo `test -f 'fftmap.cpp' || echo './'`fftmap.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_instance.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_instance.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c fftmap.cpp -fPIC -DPIC -o .libs/libclipper_core_la-fftmap.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from clipper_instance.h:49, from clipper_instance.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from fftmap.h:49, from fftmap.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-resol_basisfn.lo `test -f 'resol_basisfn.cpp' || echo './'`resol_basisfn.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c resol_basisfn.cpp -fPIC -DPIC -o .libs/libclipper_core_la-resol_basisfn.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from resol_fn.h:48, from resol_basisfn.h:48, from resol_basisfn.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_memory.lo `test -f 'clipper_memory.cpp' || echo './'`clipper_memory.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_memory.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_memory.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-fftmap_sparse.lo `test -f 'fftmap_sparse.cpp' || echo './'`fftmap_sparse.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c fftmap_sparse.cpp -fPIC -DPIC -o .libs/libclipper_core_la-fftmap_sparse.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-resol_fn.lo `test -f 'resol_fn.cpp' || echo './'`resol_fn.cpp In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from fftmap.h:49, from fftmap_sparse.h:49, from fftmap_sparse.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c resol_fn.cpp -fPIC -DPIC -o .libs/libclipper_core_la-resol_fn.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from resol_fn.h:48, from resol_fn.cpp:44: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from resol_fn.h:48, from resol_fn.cpp:44: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from resol_fn.h:48, from resol_fn.cpp:44: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::ResolutionFn::ResolutionFn(const clipper::HKL_info&, const clipper::BasisFn_base&, const clipper::TargetFn_base&, const std::vector&, clipper::ftype, bool)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::ResolutionFn_nonlinear::ResolutionFn_nonlinear(const clipper::HKL_info&, const clipper::BasisFn_base&, const clipper::TargetFn_base&, const std::vector&, clipper::ftype, bool)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_message.lo `test -f 'clipper_message.cpp' || echo './'`clipper_message.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_message.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_message.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-hkl_compute.lo `test -f 'hkl_compute.cpp' || echo './'`hkl_compute.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-resol_targetfn.lo `test -f 'resol_targetfn.cpp' || echo './'`resol_targetfn.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c hkl_compute.cpp -fPIC -DPIC -o .libs/libclipper_core_la-hkl_compute.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c resol_targetfn.cpp -fPIC -DPIC -o .libs/libclipper_core_la-resol_targetfn.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from resol_fn.h:48, from resol_basisfn.h:48, from resol_targetfn.h:48, from resol_targetfn.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_compute.h:48, from hkl_compute.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_stats.lo `test -f 'clipper_stats.cpp' || echo './'`clipper_stats.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_stats.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_stats.o In file included from clipper_types.h:49, from clipper_stats.h:49, from clipper_stats.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from clipper_stats.h:49, from clipper_stats.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from clipper_stats.h:49, from clipper_stats.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::Generic_ordinal::init(const clipper::Range&, int)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::Generic_ordinal::init(int)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-hkl_data.lo `test -f 'hkl_data.cpp' || echo './'`hkl_data.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c hkl_data.cpp -fPIC -DPIC -o .libs/libclipper_core_la-hkl_data.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_data.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-rotation.lo `test -f 'rotation.cpp' || echo './'`rotation.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c rotation.cpp -fPIC -DPIC -o .libs/libclipper_core_la-rotation.o In file included from clipper_types.h:49, from rotation.h:49, from rotation.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_test.lo `test -f 'clipper_test.cpp' || echo './'`clipper_test.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_test.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_test.o In file included from clipper_types.h:49, from clipper_test.h:49, from clipper_test.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-hkl_datatypes.lo `test -f 'hkl_datatypes.cpp' || echo './'`hkl_datatypes.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-spacegroup.lo `test -f 'spacegroup.cpp' || echo './'`spacegroup.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c hkl_datatypes.cpp -fPIC -DPIC -o .libs/libclipper_core_la-hkl_datatypes.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c spacegroup.cpp -fPIC -DPIC -o .libs/libclipper_core_la-spacegroup.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_datatypes.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from clipper_types.h:49, from symop.h:49, from spacegroup.h:50, from spacegroup.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_types.lo `test -f 'clipper_types.cpp' || echo './'`clipper_types.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_types.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_types.o In file included from clipper_types.h:49, from clipper_types.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from symop.h:49, from spacegroup.h:50, from spacegroup.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::Vec3; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::Symop; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 In file included from /usr/include/c++/8/algorithm:62, from spacegroup.cpp:47: /usr/include/c++/8/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter]': /usr/include/c++/8/bits/stl_algo.h:1821:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __unguarded_linear_insert(_RandomAccessIterator __last, ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __insertion_sort(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 In file included from /usr/include/c++/8/bits/stl_algo.h:61, from /usr/include/c++/8/algorithm:62, from spacegroup.cpp:47: /usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Distance = int; _Tp = clipper::Vec3; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, ^~~~~~~~~~~~~ In file included from /usr/include/c++/8/algorithm:62, from spacegroup.cpp:47: /usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter]': /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 __introsort_loop(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 /usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__introsort_loop(__cut, __last, __depth_limit, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from symop.h:49, from spacegroup.h:50, from spacegroup.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In function 'clipper::Vec3 clipper::real_asu(const clipper::Spgr_descr::Symop_codes&)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/algorithm:62, from spacegroup.cpp:47: /usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__introsort_loop(__first, __last, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ std::__lg(__last - __first) * 2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __comp); ~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__insertion_sort(__first, __first + int(_S_threshold), __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from symop.h:49, from spacegroup.h:50, from spacegroup.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::Spgr_cacheobj::Spgr_cacheobj(const Key&)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from clipper_types.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from clipper_types.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::Matrix::Matrix(const int&, const int&, T) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::Matrix::Matrix(const int&, const int&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector clipper::Matrix::eigen(bool) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-hkl_info.lo `test -f 'hkl_info.cpp' || echo './'`hkl_info.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c hkl_info.cpp -fPIC -DPIC -o .libs/libclipper_core_la-hkl_info.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_info.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-spacegroup_data.lo `test -f 'spacegroup_data.cpp' || echo './'`spacegroup_data.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c spacegroup_data.cpp -fPIC -DPIC -o .libs/libclipper_core_la-spacegroup_data.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_util.lo `test -f 'clipper_util.cpp' || echo './'`clipper_util.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_util.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_util.o In file included from clipper_util.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-hkl_lookup.lo `test -f 'hkl_lookup.cpp' || echo './'`hkl_lookup.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c hkl_lookup.cpp -fPIC -DPIC -o .libs/libclipper_core_la-hkl_lookup.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_lookup.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-symop.lo `test -f 'symop.cpp' || echo './'`symop.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c symop.cpp -fPIC -DPIC -o .libs/libclipper_core_la-symop.o In file included from clipper_types.h:49, from symop.h:49, from symop.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-container.lo `test -f 'container.cpp' || echo './'`container.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c container.cpp -fPIC -DPIC -o .libs/libclipper_core_la-container.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from container.h:49, from container.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-hkl_operators.lo `test -f 'hkl_operators.cpp' || echo './'`hkl_operators.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c hkl_operators.cpp -fPIC -DPIC -o .libs/libclipper_core_la-hkl_operators.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_operators.h:48, from hkl_operators.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-container_hkl.lo `test -f 'container_hkl.cpp' || echo './'`container_hkl.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c container_hkl.cpp -fPIC -DPIC -o .libs/libclipper_core_la-container_hkl.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from container.h:49, from container_types.h:49, from container_hkl.h:49, from container_hkl.cpp:42: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-map_interp.lo `test -f 'map_interp.cpp' || echo './'`map_interp.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c map_interp.cpp -fPIC -DPIC -o .libs/libclipper_core_la-map_interp.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from derivs.h:49, from map_interp.h:48, from map_interp.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-container_map.lo `test -f 'container_map.cpp' || echo './'`container_map.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c container_map.cpp -fPIC -DPIC -o .libs/libclipper_core_la-container_map.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from container.h:49, from container_types.h:49, from container_map.h:49, from container_map.cpp:42: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-map_utils.lo `test -f 'map_utils.cpp' || echo './'`map_utils.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c map_utils.cpp -fPIC -DPIC -o .libs/libclipper_core_la-map_utils.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from derivs.h:49, from map_utils.h:49, from map_utils.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_operators.h:48, from hkl_operators.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_operators.h:48, from hkl_operators.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::LogPhaseProb::LogPhaseProb(const clipper::HKL_class&) [with int N = 180]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::LogPhaseProb::LogPhaseProb(const clipper::HKL_class&) [with int N = 72]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-xmap.lo `test -f 'xmap.cpp' || echo './'`xmap.cpp /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::LogPhaseProb::LogPhaseProb(const clipper::HKL_class&) [with int N = 360]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::LogPhaseProb::LogPhaseProb(const clipper::HKL_class&) [with int N = 24]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c xmap.cpp -fPIC -DPIC -o .libs/libclipper_core_la-xmap.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from fftmap.h:49, from xmap.h:49, from xmap.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_operators.h:48, from hkl_operators.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::F_phi; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_operators.h:48, from hkl_operators.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::F_phi]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_operators.h:48, from hkl_operators.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::ABCD; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from hkl_operators.h:48, from hkl_operators.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::ABCD]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-container_types.lo `test -f 'container_types.cpp' || echo './'`container_types.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c container_types.cpp -fPIC -DPIC -o .libs/libclipper_core_la-container_types.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from container.h:49, from container_types.h:49, from container_types.cpp:42: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-nxmap.lo `test -f 'nxmap.cpp' || echo './'`nxmap.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-clipper_thread.lo `test -f 'clipper_thread.cpp' || echo './'`clipper_thread.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c nxmap.cpp -fPIC -DPIC -o .libs/libclipper_core_la-nxmap.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from derivs.h:49, from nxmap.h:49, from nxmap.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c clipper_thread.cpp -fPIC -DPIC -o .libs/libclipper_core_la-clipper_thread.o /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-test_core.lo `test -f 'test_core.cpp' || echo './'`test_core.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c test_core.cpp -fPIC -DPIC -o .libs/libclipper_core_la-test_core.o In file included from clipper_types.h:49, from clipper_test.h:49, from test_core.h:49, from test_core.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o libclipper_core_la-test_data.lo `test -f 'test_data.cpp' || echo './'`test_data.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c test_data.cpp -fPIC -DPIC -o .libs/libclipper_core_la-test_data.o In file included from clipper_types.h:49, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from test_data.h:49, from test_data.cpp:43: clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from fftmap.h:49, from xmap.h:49, from xmap.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from fftmap.h:49, from xmap.h:49, from xmap.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::Xmap::init(const clipper::Spacegroup&, const clipper::Cell&, const clipper::Grid_sampling&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::Xmap::Xmap(const clipper::Spacegroup&, const clipper::Cell&, const clipper::Grid_sampling&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from test_data.h:49, from test_data.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::Atom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from cell.h:50, from coords.h:49, from hkl_lookup.h:49, from hkl_info.h:49, from hkl_data.h:49, from hkl_datatypes.h:49, from test_data.h:49, from test_data.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::data::Test_data::Test_data()': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from clipper_memory.h:50, from clipper_types.h:50, from clipper_test.h:49, from test_core.h:49, from test_core.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/algorithm:62, from test_core.cpp:52: /usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __insertion_sort(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/8/bits/stl_algo.h:61, from /usr/include/c++/8/algorithm:62, from test_core.cpp:52: /usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, ^~~~~~~~~~~~~ In file included from /usr/include/c++/8/algorithm:62, from test_core.cpp:52: /usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __introsort_loop(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__cut, __last, __depth_limit, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from clipper_test.h:49, from test_core.h:49, from test_core.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::Test_core::operator()()': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/algorithm:62, from test_core.cpp:52: /usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__first, __last, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ std::__lg(__last - __first) * 2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __comp); ~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __first + int(_S_threshold), __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from clipper_memory.h:50, from clipper_types.h:50, from clipper_test.h:49, from test_core.h:49, from test_core.cpp:43: /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o libclipper-core.la -rpath /usr/lib/arm-linux-gnueabihf libclipper_core_la-atomsf.lo libclipper_core_la-coords.lo libclipper_core_la-nxmap_operator.lo libclipper_core_la-cell.lo libclipper_core_la-derivs.lo libclipper_core_la-ramachandran.lo libclipper_core_la-clipper_instance.lo libclipper_core_la-fftmap.lo libclipper_core_la-resol_basisfn.lo libclipper_core_la-clipper_memory.lo libclipper_core_la-fftmap_sparse.lo libclipper_core_la-resol_fn.lo libclipper_core_la-clipper_message.lo libclipper_core_la-hkl_compute.lo libclipper_core_la-resol_targetfn.lo libclipper_core_la-clipper_stats.lo libclipper_core_la-hkl_data.lo libclipper_core_la-rotation.lo libclipper_core_la-clipper_test.lo libclipper_core_la-hkl_datatypes.lo libclipper_core_la-spacegroup.lo libclipper_core_la-clipper_types.lo libclipper_core_la-hkl_info.lo libclipper_core_la-spacegroup_data.lo libclipper_core_la-clipper_util.lo libclipper_core_la-hkl_lookup.lo libclipper_core_la-symop.lo libclipper_core_la-container.lo libclipper_core_la-hkl_operators.lo libclipper_core_la-container_hkl.lo libclipper_core_la-map_interp.lo libclipper_core_la-container_map.lo libclipper_core_la-map_utils.lo libclipper_core_la-xmap.lo libclipper_core_la-container_types.lo libclipper_core_la-nxmap.lo libclipper_core_la-clipper_thread.lo libclipper_core_la-test_core.lo libclipper_core_la-test_data.lo -lsrfftw -lsfftw -lpthread -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o .libs/libclipper_core_la-atomsf.o .libs/libclipper_core_la-coords.o .libs/libclipper_core_la-nxmap_operator.o .libs/libclipper_core_la-cell.o .libs/libclipper_core_la-derivs.o .libs/libclipper_core_la-ramachandran.o .libs/libclipper_core_la-clipper_instance.o .libs/libclipper_core_la-fftmap.o .libs/libclipper_core_la-resol_basisfn.o .libs/libclipper_core_la-clipper_memory.o .libs/libclipper_core_la-fftmap_sparse.o .libs/libclipper_core_la-resol_fn.o .libs/libclipper_core_la-clipper_message.o .libs/libclipper_core_la-hkl_compute.o .libs/libclipper_core_la-resol_targetfn.o .libs/libclipper_core_la-clipper_stats.o .libs/libclipper_core_la-hkl_data.o .libs/libclipper_core_la-rotation.o .libs/libclipper_core_la-clipper_test.o .libs/libclipper_core_la-hkl_datatypes.o .libs/libclipper_core_la-spacegroup.o .libs/libclipper_core_la-clipper_types.o .libs/libclipper_core_la-hkl_info.o .libs/libclipper_core_la-spacegroup_data.o .libs/libclipper_core_la-clipper_util.o .libs/libclipper_core_la-hkl_lookup.o .libs/libclipper_core_la-symop.o .libs/libclipper_core_la-container.o .libs/libclipper_core_la-hkl_operators.o .libs/libclipper_core_la-container_hkl.o .libs/libclipper_core_la-map_interp.o .libs/libclipper_core_la-container_map.o .libs/libclipper_core_la-map_utils.o .libs/libclipper_core_la-xmap.o .libs/libclipper_core_la-container_types.o .libs/libclipper_core_la-nxmap.o .libs/libclipper_core_la-clipper_thread.o .libs/libclipper_core_la-test_core.o .libs/libclipper_core_la-test_data.o -lsrfftw -lsfftw -lpthread -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-core.so.2 -o .libs/libclipper-core.so.2.0.1 libtool: link: (cd ".libs" && rm -f "libclipper-core.so.2" && ln -s "libclipper-core.so.2.0.1" "libclipper-core.so.2") libtool: link: (cd ".libs" && rm -f "libclipper-core.so" && ln -s "libclipper-core.so.2.0.1" "libclipper-core.so") libtool: link: ( cd ".libs" && rm -f "libclipper-core.la" && ln -s "../libclipper-core.la" "libclipper-core.la" ) make[4]: Leaving directory '/build/clipper-2.1.20160809/clipper/core' Making all in contrib make[4]: Entering directory '/build/clipper-2.1.20160809/clipper/contrib' /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o convolution_search.lo convolution_search.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o sfcalc.lo sfcalc.cpp /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o edcalc.lo edcalc.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c edcalc.cpp -fPIC -DPIC -o .libs/edcalc.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c sfcalc.cpp -fPIC -DPIC -o .libs/sfcalc.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c convolution_search.cpp -fPIC -DPIC -o .libs/convolution_search.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from convolution_search.h:50, from convolution_search.cpp:42: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from edcalc.h:50, from edcalc.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfcalc.h:50, from sfcalc.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from convolution_search.h:50, from convolution_search.cpp:42: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from convolution_search.h:50, from convolution_search.cpp:42: /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::Convolution_search_slow::operator()(clipper::Xmap&, const clipper::NXmap&, const clipper::NX_operator&) const [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o sfcalc_obs.lo sfcalc_obs.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c sfcalc_obs.cpp -fPIC -DPIC -o .libs/sfcalc_obs.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfcalc_obs.h:49, from sfcalc_obs.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o fffear.lo fffear.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c fffear.cpp -fPIC -DPIC -o .libs/fffear.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from fffear.h:50, from fffear.cpp:42: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o sfscale.lo sfscale.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c sfscale.cpp -fPIC -DPIC -o .libs/sfscale.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfcalc_obs.h:49, from sfcalc_obs.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfcalc_obs.h:49, from sfcalc_obs.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::SFcalc_obs_bulk::operator()(clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::Atom_list&) [with T = float]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfcalc_obs.h:49, from sfcalc_obs.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::F_phi; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfcalc_obs.h:49, from sfcalc_obs.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::F_phi]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::SFcalc_obs_bulk::operator()(clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::Atom_list&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o function_object_bases.lo function_object_bases.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c function_object_bases.cpp -fPIC -DPIC -o .libs/function_object_bases.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from function_object_bases.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'std::vector clipper::Matrix::eigen(bool) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::BasisFn_base::Fderiv::Fderiv(const int&)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from fffear.h:50, from fffear.cpp:42: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::Matrix::Matrix(const int&, const int&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from fffear.h:50, from fffear.cpp:42: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::NXmap::NXmap(const clipper::Cell&, const clipper::Grid_sampling&, const clipper::Grid_range&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o sfweight.lo sfweight.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c sfweight.cpp -fPIC -DPIC -o .libs/sfweight.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o mapfilter.lo mapfilter.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c mapfilter.cpp -fPIC -DPIC -o .libs/mapfilter.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from mapfilter.h:50, from mapfilter.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from mapfilter.h:50, from mapfilter.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from mapfilter.h:50, from mapfilter.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::MapFilter_fft::operator()(clipper::NXmap&, const clipper::NXmap&) const [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::F_sigF; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::F_sigF]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::MapFilter_slow::operator()(clipper::Xmap&, const clipper::Xmap&) const [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::SFweight_spline::HLterms; _Alloc = std::allocator::HLterms>]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::HLterms, std::allocator::HLterms> >::iterator' {aka '__gnu_cxx::__normal_iterator::HLterms*, std::vector::HLterms, std::allocator::HLterms> > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::SFweight_spline::init(int, int, int) [with T = float]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator::HLterms*, std::vector::HLterms, std::allocator::HLterms> > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::MapFilter_fft::operator()(clipper::Xmap&, const clipper::Xmap&) const [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::SFweight_spline::HLterms; _Alloc = std::allocator::HLterms>]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::HLterms, std::allocator::HLterms> >::iterator' {aka '__gnu_cxx::__normal_iterator::HLterms*, std::vector::HLterms, std::allocator::HLterms> > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::SFweight_spline::init(int, int, int) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator::HLterms*, std::vector::HLterms, std::allocator::HLterms> > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o skeleton.lo skeleton.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c skeleton.cpp -fPIC -DPIC -o .libs/skeleton.o In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from skeleton.h:50, from skeleton.cpp:42: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::F_phi; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::F_phi]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::resize(std::vector<_Tp, _Alloc>::size_type, std::vector<_Tp, _Alloc>::value_type) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::BasisFn_spline::BasisFn_spline(const clipper::HKL_data_base&, const int&, clipper::ftype)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::ABCD; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::ABCD]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::I_sigI; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfscale.h:49, from sfscale.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::I_sigI]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::SFweight_spline::evaluate(clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data&, F) [with F = clipper::SFweight_spline::TargetFo; T = float]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::SFweight_spline::evaluate(clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data&, F) [with F = clipper::SFweight_spline::TargetHL; T = float]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::E_sigE; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::E_sigE]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::F_sigF; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::F_sigF]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o originmatch.lo originmatch.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c originmatch.cpp -fPIC -DPIC -o .libs/originmatch.o /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::SFweight_spline::evaluate(clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data&, F) [with F = clipper::SFweight_spline::TargetFo; T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from ../core/clipper_types.h:49, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from originmatch.h:49, from originmatch.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o test_contrib.lo test_contrib.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c test_contrib.cpp -fPIC -DPIC -o .libs/test_contrib.o In file included from ../core/clipper_types.h:49, from ../core/clipper_test.h:49, from test_contrib.h:49, from test_contrib.cpp:43: ../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::SFweight_spline::evaluate(clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data >&, const clipper::HKL_data&, F) [with F = clipper::SFweight_spline::TargetHL; T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::datatypes::F_phi; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector, std::allocator > >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/cell.h:50, from ../core/coords.h:49, from ../core/hkl_lookup.h:49, from ../core/hkl_info.h:49, from ../core/hkl_data.h:49, from ../core/hkl_datatypes.h:49, from function_object_bases.h:50, from sfweight.h:49, from sfweight.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::HKL_data::update() [with T = clipper::datatypes::F_phi]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/clipper_test.h:49, from test_contrib.h:49, from test_contrib.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::Atom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../core/clipper_memory.h:50, from ../core/clipper_types.h:50, from ../core/clipper_test.h:49, from test_contrib.h:49, from test_contrib.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'bool clipper::Test_contrib::operator()()': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o libclipper-contrib.la -rpath /usr/lib/arm-linux-gnueabihf convolution_search.lo sfcalc.lo edcalc.lo sfcalc_obs.lo fffear.lo sfscale.lo function_object_bases.lo sfweight.lo mapfilter.lo skeleton.lo originmatch.lo test_contrib.lo ../core/libclipper-core.la -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o .libs/convolution_search.o .libs/sfcalc.o .libs/edcalc.o .libs/sfcalc_obs.o .libs/fffear.o .libs/sfscale.o .libs/function_object_bases.o .libs/sfweight.o .libs/mapfilter.o .libs/skeleton.o .libs/originmatch.o .libs/test_contrib.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs ../core/.libs/libclipper-core.so -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-contrib.so.2 -o .libs/libclipper-contrib.so.2.0.1 libtool: link: (cd ".libs" && rm -f "libclipper-contrib.so.2" && ln -s "libclipper-contrib.so.2.0.1" "libclipper-contrib.so.2") libtool: link: (cd ".libs" && rm -f "libclipper-contrib.so" && ln -s "libclipper-contrib.so.2.0.1" "libclipper-contrib.so") libtool: link: ( cd ".libs" && rm -f "libclipper-contrib.la" && ln -s "../libclipper-contrib.la" "libclipper-contrib.la" ) make[4]: Leaving directory '/build/clipper-2.1.20160809/clipper/contrib' make[4]: Entering directory '/build/clipper-2.1.20160809/clipper' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o mmdb/clipper_mmdb.lo mmdb/clipper_mmdb.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o minimol/minimol.lo minimol/minimol.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o minimol/container_minimol.lo minimol/container_minimol.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c mmdb/clipper_mmdb.cpp -fPIC -DPIC -o mmdb/.libs/clipper_mmdb.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c minimol/minimol.cpp -fPIC -DPIC -o minimol/.libs/minimol.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c minimol/container_minimol.cpp -fPIC -DPIC -o minimol/.libs/container_minimol.o In file included from mmdb/../core/clipper_types.h:49, from mmdb/../core/cell.h:50, from mmdb/../core/coords.h:49, from mmdb/clipper_mmdb.h:49, from mmdb/clipper_mmdb.cpp:42: mmdb/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from minimol/../core/clipper_types.h:49, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/../core/container.h:49, from minimol/../core/container_types.h:49, from minimol/container_minimol.h:49, from minimol/container_minimol.cpp:42: minimol/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from minimol/../core/clipper_types.h:49, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: minimol/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o minimol/minimol_data.lo minimol/minimol_data.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c minimol/minimol_data.cpp -fPIC -DPIC -o minimol/.libs/minimol_data.o In file included from /usr/include/c++/8/vector:69, from mmdb/../core/clipper_memory.h:50, from mmdb/../core/clipper_types.h:50, from mmdb/../core/cell.h:50, from mmdb/../core/coords.h:49, from mmdb/clipper_mmdb.h:49, from mmdb/clipper_mmdb.cpp:42: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::Atom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from mmdb/../core/clipper_memory.h:50, from mmdb/../core/clipper_types.h:50, from mmdb/../core/cell.h:50, from mmdb/../core/coords.h:49, from mmdb/clipper_mmdb.h:49, from mmdb/clipper_mmdb.cpp:42: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::MMDBAtom_list::MMDBAtom_list(clipper::mmdb::PPCAtom, int)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o minimol/minimol_io.lo minimol/minimol_io.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c minimol/minimol_io.cpp -fPIC -DPIC -o minimol/.libs/minimol_io.o In file included from minimol/../mmdb/../core/clipper_types.h:49, from minimol/../mmdb/../core/cell.h:50, from minimol/../mmdb/../core/coords.h:49, from minimol/../mmdb/clipper_mmdb.h:49, from minimol/minimol_io.h:49, from minimol/minimol_io.cpp:42: minimol/../mmdb/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o minimol/minimol_seq.lo minimol/minimol_seq.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c minimol/minimol_seq.cpp -fPIC -DPIC -o minimol/.libs/minimol_seq.o In file included from minimol/../core/clipper_types.h:49, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol_seq.h:49, from minimol/minimol_seq.cpp:42: minimol/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = clipper::MAtom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:159:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::Atom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'clipper::Atom_list clipper::MMonomer::atom_list() const': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'clipper::Atom_list clipper::MModel::atom_list() const': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'clipper::Atom_list clipper::MPolymer::atom_list() const': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::MAtom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::MMonomer::insert(const clipper::MAtom&, int)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/vector.tcc:151:2: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 _M_realloc_insert(__position, __x); ^~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o minimol/minimol_utils.lo minimol/minimol_utils.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c minimol/minimol_utils.cpp -fPIC -DPIC -o minimol/.libs/minimol_utils.o In file included from minimol/../core/clipper_types.h:49, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol_utils.h:49, from minimol/minimol_utils.cpp:43: minimol/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:64, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::MMonomer::protein_mainchain_build_carbonyl_oxygen()': /usr/include/c++/8/bits/stl_vector.h:1321:35: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 { return _M_erase(__position); } ^ /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::MMonomer::protein_mainchain_build_carbonyl_oxygen(const clipper::MMonomer&)': /usr/include/c++/8/bits/stl_vector.h:1321:35: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 { return _M_erase(__position); } ^ /usr/include/c++/8/bits/stl_vector.h: In member function 'clipper::ftype clipper::MMonomer::protein_sidechain_build_rotamer(const int&, clipper::MMonomer::TYPE)': /usr/include/c++/8/bits/stl_vector.h:1321:35: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 { return _M_erase(__position); } ^ In file included from /usr/include/c++/8/vector:69, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = clipper::MAtom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from minimol/../core/clipper_memory.h:50, from minimol/../core/clipper_types.h:50, from minimol/../core/cell.h:50, from minimol/../core/coords.h:49, from minimol/minimol.h:49, from minimol/minimol.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'clipper::MMonomer& clipper::MMonomer::copy(const clipper::MMonomer&, const clipper::MM::COPY&)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o phs/phs_io.lo phs/phs_io.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c phs/phs_io.cpp -fPIC -DPIC -o phs/.libs/phs_io.o In file included from phs/../core/clipper_types.h:49, from phs/../core/cell.h:50, from phs/../core/coords.h:49, from phs/../core/hkl_lookup.h:49, from phs/../core/hkl_info.h:49, from phs/../core/hkl_data.h:49, from phs/../core/hkl_datatypes.h:49, from phs/phs_io.h:49, from phs/phs_io.cpp:42: phs/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o cif/cif_data_io.lo cif/cif_data_io.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c cif/cif_data_io.cpp -fPIC -DPIC -o cif/.libs/cif_data_io.o In file included from cif/../core/clipper_types.h:49, from cif/../core/cell.h:50, from cif/../core/coords.h:49, from cif/../core/hkl_lookup.h:49, from cif/../core/hkl_info.h:49, from cif/../core/hkl_data.h:49, from cif/../core/hkl_datatypes.h:49, from cif/cif_data_io.h:48, from cif/cif_data_io.cpp:44: cif/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o ccp4/ccp4_mtz_types.lo ccp4/ccp4_mtz_types.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o ccp4/ccp4_mtz_io.lo ccp4/ccp4_mtz_io.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c ccp4/ccp4_mtz_types.cpp -fPIC -DPIC -o ccp4/.libs/ccp4_mtz_types.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c ccp4/ccp4_mtz_io.cpp -fPIC -DPIC -o ccp4/.libs/ccp4_mtz_io.o In file included from ccp4/../core/clipper_types.h:49, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_hkl.h:49, from ccp4/ccp4_mtz_types.h:49, from ccp4/ccp4_mtz_types.cpp:43: ccp4/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from cif/../core/clipper_memory.h:50, from cif/../core/clipper_types.h:50, from cif/../core/cell.h:50, from cif/../core/coords.h:49, from cif/../core/hkl_lookup.h:49, from cif/../core/hkl_info.h:49, from cif/../core/hkl_data.h:49, from cif/../core/hkl_datatypes.h:49, from cif/cif_data_io.h:48, from cif/cif_data_io.cpp:44: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from ccp4/../core/clipper_types.h:49, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_hkl.h:49, from ccp4/ccp4_mtz_types.h:49, from ccp4/ccp4_mtz_io.h:49, from ccp4/ccp4_mtz_io.cpp:42: ccp4/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:64, from cif/../core/clipper_memory.h:50, from cif/../core/clipper_types.h:50, from cif/../core/cell.h:50, from cif/../core/coords.h:49, from cif/../core/hkl_lookup.h:49, from cif/../core/hkl_info.h:49, from cif/../core/hkl_data.h:49, from cif/../core/hkl_datatypes.h:49, from cif/cif_data_io.h:48, from cif/cif_data_io.cpp:44: /usr/include/c++/8/bits/stl_vector.h: In member function 'int clipper::CIFfile::set_cell_symm_reso_by_kludge(std::__cxx11::string)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o ccp4/ccp4_map_io.lo ccp4/ccp4_map_io.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c ccp4/ccp4_map_io.cpp -fPIC -DPIC -o ccp4/.libs/ccp4_map_io.o In file included from ccp4/../core/clipper_types.h:49, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_map.h:49, from ccp4/ccp4_map_io.h:49, from ccp4/ccp4_map_io.cpp:43: ccp4/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o ccp4/ccp4_utils.lo ccp4/ccp4_utils.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c ccp4/ccp4_utils.cpp -fPIC -DPIC -o ccp4/.libs/ccp4_utils.o In file included from /usr/include/c++/8/vector:69, from ccp4/../core/clipper_memory.h:50, from ccp4/../core/clipper_types.h:50, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_hkl.h:49, from ccp4/ccp4_mtz_types.h:49, from ccp4/ccp4_mtz_io.h:49, from ccp4/ccp4_mtz_io.cpp:42: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o cns/cns_hkl_io.lo cns/cns_hkl_io.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c cns/cns_hkl_io.cpp -fPIC -DPIC -o cns/.libs/cns_hkl_io.o In file included from cns/../core/clipper_types.h:49, from cns/../core/cell.h:50, from cns/../core/coords.h:49, from cns/../core/hkl_lookup.h:49, from cns/../core/hkl_info.h:49, from cns/../core/hkl_data.h:49, from cns/../core/hkl_datatypes.h:49, from cns/cns_hkl_io.h:49, from cns/cns_hkl_io.cpp:42: cns/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::CCP4MTZfile::datasetinf; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ccp4/../core/clipper_memory.h:50, from ccp4/../core/clipper_types.h:50, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_hkl.h:49, from ccp4/ccp4_mtz_types.h:49, from ccp4/ccp4_mtz_io.h:49, from ccp4/ccp4_mtz_io.cpp:42: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::CCP4MTZfile::export_dataset(const clipper::MTZdataset&, clipper::String)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o cns/cns_map_io.lo cns/cns_map_io.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c cns/cns_map_io.cpp -fPIC -DPIC -o cns/.libs/cns_map_io.o In file included from cns/../core/clipper_types.h:49, from cns/../core/cell.h:50, from cns/../core/coords.h:49, from cns/../core/container.h:49, from cns/../core/container_types.h:49, from cns/../core/container_map.h:49, from cns/cns_map_io.h:49, from cns/cns_map_io.cpp:43: cns/../core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = unsigned char]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = char]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = short unsigned int]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = short int]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = unsigned int]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = int]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = float]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = double]': cns/cns_map_io.cpp:202:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:205:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:209:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:212:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:223:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:235:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:243:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:252:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = unsigned char]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = char]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = short unsigned int]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = short int]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = unsigned int]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = int]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = float]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = double]': cns/cns_map_io.cpp:331:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:334:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:338:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:341:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:352:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:364:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:372:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:381:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'clipper::CNSMAPfile::ASUerror clipper::CNSMAPfile::import_xmap_check_asu(clipper::Xmap&, T) [with T = float]': cns/cns_map_io.cpp:497:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:500:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:504:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:507:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:518:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:536:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:544:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:553:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp: In member function 'clipper::CNSMAPfile::ASUerror clipper::CNSMAPfile::import_xmap_check_asu(clipper::Xmap&, T) [with T = double]': cns/cns_map_io.cpp:497:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:500:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // could be blank line first ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:504:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:507:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:518:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:536:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:544:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; // read slice number line ~~~~~^~~~~~~~~~~ cns/cns_map_io.cpp:553:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] fgets(buf,512,f);; ~~~~~^~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ccp4/../core/clipper_memory.h:50, from ccp4/../core/clipper_types.h:50, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_hkl.h:49, from ccp4/ccp4_mtz_types.h:49, from ccp4/ccp4_mtz_io.h:49, from ccp4/ccp4_mtz_io.cpp:42: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::CCP4MTZfile::crystalinf; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ccp4/../core/clipper_memory.h:50, from ccp4/../core/clipper_types.h:50, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_hkl.h:49, from ccp4/ccp4_mtz_types.h:49, from ccp4/ccp4_mtz_io.h:49, from ccp4/ccp4_mtz_io.cpp:42: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::CCP4MTZfile::export_crystal(const clipper::MTZcrystal&, clipper::String)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In function 'void clipper::read_hierarchy(CMtz::MTZ*, std::vector&)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ccp4/../core/clipper_memory.h:50, from ccp4/../core/clipper_types.h:50, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_map.h:49, from ccp4/ccp4_map_io.h:49, from ccp4/ccp4_map_io.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ccp4/../core/clipper_memory.h:50, from ccp4/../core/clipper_types.h:50, from ccp4/../core/cell.h:50, from ccp4/../core/coords.h:49, from ccp4/../core/container.h:49, from ccp4/../core/container_types.h:49, from ccp4/../core/container_map.h:49, from ccp4/ccp4_map_io.h:49, from ccp4/ccp4_map_io.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::CCP4MAPfile::import_nxmap(clipper::NXmap&) const [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'clipper::CCP4MAPfile::ASUerror clipper::CCP4MAPfile::import_xmap_check_asu(clipper::Xmap&, T) const [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::CCP4MTZfile::open_write(clipper::String)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::CCP4MAPfile::import_xmap(clipper::Xmap&) const [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In function 'void clipper::reference_cols(CMtz::MTZ*, std::vector, std::vector >, std::vector >&, std::vector >&)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o fortran/f_interface.lo fortran/f_interface.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c fortran/f_interface.cpp -fPIC -DPIC -o fortran/.libs/f_interface.o In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from fortran/f_interface.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from fortran/f_interface.cpp:1: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::Atom; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from fortran/f_interface.cpp:1: /usr/include/c++/8/bits/stl_vector.h: In function 'void sfcalc_(const int*, const float*, const int*, const float*, const float*, const float*, const float*, const float*, const int*, const int*, const int*, const int*, const int*, float*, float*)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o mmdb/libclipper-mmdb.la -rpath /usr/lib/arm-linux-gnueabihf mmdb/clipper_mmdb.lo core/libclipper-core.la -lmmdb2 -lm /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o phs/libclipper-phs.la -rpath /usr/lib/arm-linux-gnueabihf phs/phs_io.lo core/libclipper-core.la -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o mmdb/.libs/clipper_mmdb.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs core/.libs/libclipper-core.so -lmmdb2 -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-mmdb.so.2 -o mmdb/.libs/libclipper-mmdb.so.2.0.1 libtool: link: (cd "mmdb/.libs" && rm -f "libclipper-mmdb.so.2" && ln -s "libclipper-mmdb.so.2.0.1" "libclipper-mmdb.so.2") libtool: link: (cd "mmdb/.libs" && rm -f "libclipper-mmdb.so" && ln -s "libclipper-mmdb.so.2.0.1" "libclipper-mmdb.so") libtool: link: ( cd "mmdb/.libs" && rm -f "libclipper-mmdb.la" && ln -s "../libclipper-mmdb.la" "libclipper-mmdb.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o cif/libclipper-cif.la -rpath /usr/lib/arm-linux-gnueabihf cif/cif_data_io.lo core/libclipper-core.la -lmmdb2 -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o phs/.libs/phs_io.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs core/.libs/libclipper-core.so -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-phs.so.2 -o phs/.libs/libclipper-phs.so.2.0.1 libtool: link: (cd "phs/.libs" && rm -f "libclipper-phs.so.2" && ln -s "libclipper-phs.so.2.0.1" "libclipper-phs.so.2") libtool: link: (cd "phs/.libs" && rm -f "libclipper-phs.so" && ln -s "libclipper-phs.so.2.0.1" "libclipper-phs.so") libtool: link: ( cd "phs/.libs" && rm -f "libclipper-phs.la" && ln -s "../libclipper-phs.la" "libclipper-phs.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o ccp4/libclipper-ccp4.la -rpath /usr/lib/arm-linux-gnueabihf ccp4/ccp4_mtz_types.lo ccp4/ccp4_mtz_io.lo ccp4/ccp4_map_io.lo ccp4/ccp4_utils.lo core/libclipper-core.la -lccp4c -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o cif/.libs/cif_data_io.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs core/.libs/libclipper-core.so -lmmdb2 -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-cif.so.2 -o cif/.libs/libclipper-cif.so.2.0.1 libtool: link: (cd "cif/.libs" && rm -f "libclipper-cif.so.2" && ln -s "libclipper-cif.so.2.0.1" "libclipper-cif.so.2") libtool: link: (cd "cif/.libs" && rm -f "libclipper-cif.so" && ln -s "libclipper-cif.so.2.0.1" "libclipper-cif.so") libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o ccp4/.libs/ccp4_mtz_types.o ccp4/.libs/ccp4_mtz_io.o ccp4/.libs/ccp4_map_io.o ccp4/.libs/ccp4_utils.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs core/.libs/libclipper-core.so -lccp4c -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-ccp4.so.2 -o ccp4/.libs/libclipper-ccp4.so.2.0.1 libtool: link: ( cd "cif/.libs" && rm -f "libclipper-cif.la" && ln -s "../libclipper-cif.la" "libclipper-cif.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o fortran/libclipper-fortran.la -rpath /usr/lib/arm-linux-gnueabihf fortran/f_interface.lo core/libclipper-core.la contrib/libclipper-contrib.la -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o fortran/.libs/f_interface.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/contrib/.libs core/.libs/libclipper-core.so contrib/.libs/libclipper-contrib.so -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-fortran.so.2 -o fortran/.libs/libclipper-fortran.so.2.0.1 libtool: link: (cd "ccp4/.libs" && rm -f "libclipper-ccp4.so.2" && ln -s "libclipper-ccp4.so.2.0.1" "libclipper-ccp4.so.2") libtool: link: (cd "ccp4/.libs" && rm -f "libclipper-ccp4.so" && ln -s "libclipper-ccp4.so.2.0.1" "libclipper-ccp4.so") libtool: link: ( cd "ccp4/.libs" && rm -f "libclipper-ccp4.la" && ln -s "../libclipper-ccp4.la" "libclipper-ccp4.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o minimol/libclipper-minimol.la -rpath /usr/lib/arm-linux-gnueabihf minimol/minimol.lo minimol/container_minimol.lo minimol/minimol_data.lo minimol/minimol_io.lo minimol/minimol_seq.lo minimol/minimol_utils.lo core/libclipper-core.la mmdb/libclipper-mmdb.la -lmmdb2 -lm libtool: link: (cd "fortran/.libs" && rm -f "libclipper-fortran.so.2" && ln -s "libclipper-fortran.so.2.0.1" "libclipper-fortran.so.2") libtool: link: (cd "fortran/.libs" && rm -f "libclipper-fortran.so" && ln -s "libclipper-fortran.so.2.0.1" "libclipper-fortran.so") libtool: link: ( cd "fortran/.libs" && rm -f "libclipper-fortran.la" && ln -s "../libclipper-fortran.la" "libclipper-fortran.la" ) libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o minimol/.libs/minimol.o minimol/.libs/container_minimol.o minimol/.libs/minimol_data.o minimol/.libs/minimol_io.o minimol/.libs/minimol_seq.o minimol/.libs/minimol_utils.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/mmdb/.libs core/.libs/libclipper-core.so mmdb/.libs/libclipper-mmdb.so -lmmdb2 -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-minimol.so.2 -o minimol/.libs/libclipper-minimol.so.2.0.1 libtool: link: (cd "minimol/.libs" && rm -f "libclipper-minimol.so.2" && ln -s "libclipper-minimol.so.2.0.1" "libclipper-minimol.so.2") libtool: link: (cd "minimol/.libs" && rm -f "libclipper-minimol.so" && ln -s "libclipper-minimol.so.2.0.1" "libclipper-minimol.so") libtool: link: ( cd "minimol/.libs" && rm -f "libclipper-minimol.la" && ln -s "../libclipper-minimol.la" "libclipper-minimol.la" ) In file included from /usr/include/c++/8/vector:69, from cns/../core/clipper_memory.h:50, from cns/../core/clipper_types.h:50, from cns/../core/cell.h:50, from cns/../core/coords.h:49, from cns/../core/container.h:49, from cns/../core/container_types.h:49, from cns/../core/container_map.h:49, from cns/cns_map_io.h:49, from cns/cns_map_io.cpp:43: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from cns/../core/clipper_memory.h:50, from cns/../core/clipper_types.h:50, from cns/../core/cell.h:50, from cns/../core/coords.h:49, from cns/../core/container.h:49, from cns/../core/container_types.h:49, from cns/../core/container_map.h:49, from cns/cns_map_io.h:49, from cns/cns_map_io.cpp:43: /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::CNSMAPfile::import_nxmap(clipper::NXmap&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'clipper::CNSMAPfile::ASUerror clipper::CNSMAPfile::import_xmap_check_asu(clipper::Xmap&, T) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In member function 'void clipper::CNSMAPfile::import_xmap(clipper::Xmap&) [with T = double]': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o cns/libclipper-cns.la -rpath /usr/lib/arm-linux-gnueabihf cns/cns_hkl_io.lo cns/cns_map_io.lo core/libclipper-core.la -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o cns/.libs/cns_hkl_io.o cns/.libs/cns_map_io.o -Wl,-rpath -Wl,/build/clipper-2.1.20160809/clipper/core/.libs core/.libs/libclipper-core.so -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-cns.so.2 -o cns/.libs/libclipper-cns.so.2.0.1 libtool: link: (cd "cns/.libs" && rm -f "libclipper-cns.so.2" && ln -s "libclipper-cns.so.2.0.1" "libclipper-cns.so.2") libtool: link: (cd "cns/.libs" && rm -f "libclipper-cns.so" && ln -s "libclipper-cns.so.2.0.1" "libclipper-cns.so") libtool: link: ( cd "cns/.libs" && rm -f "libclipper-cns.la" && ln -s "../libclipper-cns.la" "libclipper-cns.la" ) make[4]: Leaving directory '/build/clipper-2.1.20160809/clipper' make[3]: Leaving directory '/build/clipper-2.1.20160809/clipper' Making all in examples make[3]: Entering directory '/build/clipper-2.1.20160809/examples' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/clipper-2.1.20160809/examples' make[3]: Entering directory '/build/clipper-2.1.20160809' make[3]: Leaving directory '/build/clipper-2.1.20160809' make[2]: Leaving directory '/build/clipper-2.1.20160809' make[1]: Leaving directory '/build/clipper-2.1.20160809' dh_auto_test "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" make -j3 check VERBOSE=1 make[1]: Entering directory '/build/clipper-2.1.20160809' Making check in clipper make[2]: Entering directory '/build/clipper-2.1.20160809/clipper' Making check in core make[3]: Entering directory '/build/clipper-2.1.20160809/clipper/core' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/clipper-2.1.20160809/clipper/core' Making check in contrib make[3]: Entering directory '/build/clipper-2.1.20160809/clipper/contrib' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/build/clipper-2.1.20160809/clipper/contrib' make[3]: Entering directory '/build/clipper-2.1.20160809/clipper' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/build/clipper-2.1.20160809/clipper' make[2]: Leaving directory '/build/clipper-2.1.20160809/clipper' Making check in examples make[2]: Entering directory '/build/clipper-2.1.20160809/examples' make rfltest sgtest symtest ccad diffmap maptest mtztest cmaplocal ffttest sktest cnstest cns2mtz maketestdata sftest phstest ciftophs ftndemo make[3]: Entering directory '/build/clipper-2.1.20160809/examples' g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o rfltest.o rfltest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o sgtest.o sgtest.cpp g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o symtest.o symtest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from symtest.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from rfltest.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from sgtest.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o ccad.o ccad.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from ccad.cpp:69: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o diffmap.o diffmap.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from diffmap.cpp:5: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from diffmap.cpp:5: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from diffmap.cpp:5: /usr/include/c++/8/bits/stl_vector.h: In function 'int main(int, char**)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o maptest.o maptest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from maptest.cpp:4: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o mtztest.o mtztest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from mtztest.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o cmaplocal.o cmaplocal.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from cmaplocal.cpp:4: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o ffttest.o ffttest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from ffttest.cpp:6: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o sktest.o sktest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from sktest.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from mtztest.cpp:1: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:64, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from mtztest.cpp:1: /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::BasisFn_base::Fderiv::Fderiv(const int&)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In constructor 'clipper::BasisFn_spline::BasisFn_spline(const clipper::HKL_data_base&, const int&, clipper::ftype)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h: In function 'int main()': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o cnstest.o cnstest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from cnstest.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o cns2mtz.o cns2mtz.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from cns2mtz.h:4, from cns2mtz.cpp:9: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o maketestdata.o maketestdata.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from maketestdata.cpp:4: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o sftest.o sftest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from sftest.cpp:5: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o phstest.o phstest.cpp In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from phstest.cpp:1: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from cns2mtz.h:4, from cns2mtz.cpp:9: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/vector:69, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from sftest.cpp:5: /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 g++ -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -c -o ciftophs.o ciftophs.cpp /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]': /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type 'std::vector::iterator' {aka '__gnu_cxx::__normal_iterator >'} changed in GCC 7.1 vector<_Tp, _Alloc>:: ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data >; _Alloc = std::allocator > >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector > >::iterator' {aka '__gnu_cxx::__normal_iterator >*, std::vector > > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector > >::iterator' {aka '__gnu_cxx::__normal_iterator >*, std::vector > > >'} changed in GCC 7.1 In file included from ../clipper/core/clipper_types.h:49, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from ciftophs.cpp:5: ../clipper/core/clipper_util.h:73:5: warning: this decimal constant is unsigned only in ISO C90 template inline static void set_null( T& t ) { t = T(-2147483648); } ^~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 In file included from /usr/include/c++/8/algorithm:62, from sftest.cpp:11: /usr/include/c++/8/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __insertion_sort(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1840:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 In file included from /usr/include/c++/8/bits/stl_algo.h:61, from /usr/include/c++/8/algorithm:62, from sftest.cpp:11: /usr/include/c++/8/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/8/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, ^~~~~~~~~~~~~ In file included from /usr/include/c++/8/algorithm:62, from sftest.cpp:11: /usr/include/c++/8/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 __introsort_loop(_RandomAccessIterator __first, ^~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/8/bits/stl_algo.h:1940:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/8/bits/stl_algo.h:1954:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__cut, __last, __depth_limit, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, const _Tp&) [with _Tp = clipper::HKL_data; _Alloc = std::allocator >]': /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 /usr/include/c++/8/bits/vector.tcc:418:5: note: parameter passing for argument of type 'std::vector >::iterator' {aka '__gnu_cxx::__normal_iterator*, std::vector > >'} changed in GCC 7.1 In file included from /usr/include/c++/8/vector:64, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from sftest.cpp:5: /usr/include/c++/8/bits/stl_vector.h: In function 'int main(int, char**)': /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:867:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_fill_insert(end(), __new_size - size(), __x); ^~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/8/algorithm:62, from sftest.cpp:11: /usr/include/c++/8/bits/stl_algo.h:1968:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__introsort_loop(__first, __last, ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ std::__lg(__last - __first) * 2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __comp); ~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1885:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __first + int(_S_threshold), __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_algo.h:1890:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 std::__insertion_sort(__first, __last, __comp); ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ f77 -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -c -o ftndemo.o ftndemo.f /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o rfltest rfltest.o ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/rfltest rfltest.o ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o sgtest sgtest.o ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/sgtest sgtest.o ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o symtest symtest.o ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/symtest symtest.o ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o ccad ccad.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/ccad ccad.o ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o diffmap diffmap.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 In file included from /usr/include/c++/8/vector:64, from ../clipper/core/clipper_memory.h:50, from ../clipper/core/clipper_types.h:50, from ../clipper/core/cell.h:50, from ../clipper/core/coords.h:49, from ../clipper/core/container.h:49, from ../clipper/core/container_types.h:49, from ../clipper/core/container_hkl.h:49, from ../clipper/clipper.h:7, from cns2mtz.h:4, from cns2mtz.cpp:9: /usr/include/c++/8/bits/stl_vector.h: In function 'int main(int, char**)': /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator*, std::vector > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >*, std::vector > > >' changed in GCC 7.1 _M_realloc_insert(end(), __x); ^~~~~~~~~~~~~~~~~ libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/diffmap diffmap.o ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o maptest maptest.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/maptest maptest.o ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o mtztest mtztest.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/mtztest mtztest.o ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o cmaplocal cmaplocal.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/contrib/libclipper-contrib.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/cmaplocal cmaplocal.o ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/contrib/.libs/libclipper-contrib.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o ffttest ffttest.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/contrib/libclipper-contrib.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o sktest sktest.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/contrib/libclipper-contrib.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: 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../clipper/ccp4/libclipper-ccp4.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/sftest sftest.o ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/mmdb/.libs/libclipper-mmdb.so ../clipper/contrib/.libs/libclipper-contrib.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/phstest phstest.o ../clipper/phs/.libs/libclipper-phs.so ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 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-Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/ciftophs ciftophs.o ../clipper/phs/.libs/libclipper-phs.so ../clipper/cif/.libs/libclipper-cif.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/ftndemo ftndemo.o ../clipper/fortran/.libs/libclipper-fortran.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lgfortran -lm -lmmdb2 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z,relro -o cns2mtz cns2mtz.o ../clipper/ccp4/libclipper-ccp4.la ../clipper/mmdb/libclipper-mmdb.la ../clipper/core/libclipper-core.la -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -Wl,-z -Wl,relro -o .libs/cns2mtz cns2mtz.o ../clipper/ccp4/.libs/libclipper-ccp4.so ../clipper/mmdb/.libs/libclipper-mmdb.so ../clipper/core/.libs/libclipper-core.so -lsrfftw -lsfftw -L/usr/lib/arm-linux-gnueabihf -lmmdb2 make[3]: Leaving directory '/build/clipper-2.1.20160809/examples' make[2]: Leaving directory '/build/clipper-2.1.20160809/examples' make[2]: Entering directory '/build/clipper-2.1.20160809' make[2]: Leaving directory '/build/clipper-2.1.20160809' make[1]: Leaving directory '/build/clipper-2.1.20160809' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with autoreconf --ddeb-migration='libclipper2-dbg (<< 2.1.20160809-1~)' dh_testroot "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" dh_prep "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" rm -f -- debian/libclipper-dev.substvars debian/libclipper2.substvars debian/libclipper-doc.substvars rm -fr -- debian/.debhelper/generated/libclipper-dev/ debian/libclipper-dev/ debian/tmp/ debian/.debhelper/generated/libclipper2/ debian/libclipper2/ debian/.debhelper/generated/libclipper-doc/ debian/libclipper-doc/ dh_auto_install "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d /build/clipper-2.1.20160809/debian/tmp make -j1 install DESTDIR=/build/clipper-2.1.20160809/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/clipper-2.1.20160809' Making install in clipper make[2]: Entering directory '/build/clipper-2.1.20160809/clipper' Making install in core make[3]: Entering directory '/build/clipper-2.1.20160809/clipper/core' make[4]: Entering directory '/build/clipper-2.1.20160809/clipper/core' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf' /bin/bash ../../libtool --mode=install /usr/bin/install -c libclipper-core.la '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf' libtool: install: /usr/bin/install -c .libs/libclipper-core.so.2.0.1 /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-core.so.2.0.1 libclipper-core.so.2 || { rm -f libclipper-core.so.2 && ln -s libclipper-core.so.2.0.1 libclipper-core.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-core.so.2.0.1 libclipper-core.so || { rm -f libclipper-core.so && ln -s libclipper-core.so.2.0.1 libclipper-core.so; }; }) libtool: install: /usr/bin/install -c .libs/libclipper-core.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-core.la libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/core' /usr/bin/install -c -m 644 atomsf.h container_types.h nxmap_operator.h cell.h coords.h ramachandran.h clipper_instance.h derivs.h resol_basisfn.h clipper_memory.h fftmap.h resol_fn.h clipper_message.h fftmap_sparse.h resol_targetfn.h clipper_precision.h hkl_compute.h rotation.h clipper_stats.h hkl_data.h spacegroup.h clipper_sysdep.h hkl_datatypes.h spacegroup_data.h clipper_test.h hkl_info.h symop.h clipper_types.h hkl_lookup.h clipper_util.h hkl_operators.h container.h map_interp.h xmap.h container_hkl.h map_utils.h container_map.h nxmap.h clipper_thread.h test_core.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/core' /usr/bin/install -c -m 644 test_data.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/core' make[4]: Leaving directory '/build/clipper-2.1.20160809/clipper/core' make[3]: Leaving directory '/build/clipper-2.1.20160809/clipper/core' Making install in contrib make[3]: Entering directory '/build/clipper-2.1.20160809/clipper/contrib' make[4]: Entering directory '/build/clipper-2.1.20160809/clipper/contrib' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf' /bin/bash ../../libtool --mode=install /usr/bin/install -c libclipper-contrib.la '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf' libtool: warning: relinking 'libclipper-contrib.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper/contrib; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o libclipper-contrib.la -rpath /usr/lib/arm-linux-gnueabihf convolution_search.lo sfcalc.lo edcalc.lo sfcalc_obs.lo fffear.lo sfscale.lo function_object_bases.lo sfweight.lo mapfilter.lo skeleton.lo originmatch.lo test_contrib.lo ../core/libclipper-core.la -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o .libs/convolution_search.o .libs/sfcalc.o .libs/edcalc.o .libs/sfcalc_obs.o .libs/fffear.o .libs/sfscale.o .libs/function_object_bases.o .libs/sfweight.o .libs/mapfilter.o .libs/skeleton.o .libs/originmatch.o .libs/test_contrib.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-contrib.so.2 -o .libs/libclipper-contrib.so.2.0.1 libtool: install: /usr/bin/install -c .libs/libclipper-contrib.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-contrib.so.2.0.1 libclipper-contrib.so.2 || { rm -f libclipper-contrib.so.2 && ln -s libclipper-contrib.so.2.0.1 libclipper-contrib.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-contrib.so.2.0.1 libclipper-contrib.so || { rm -f libclipper-contrib.so && ln -s libclipper-contrib.so.2.0.1 libclipper-contrib.so; }; }) libtool: install: /usr/bin/install -c .libs/libclipper-contrib.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-contrib.la libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/contrib' /usr/bin/install -c -m 644 convolution_search.h mapfilter.h sfscale.h edcalc.h originmatch.h sfweight.h fffear.h sfcalc.h skeleton.h function_object_bases.h sfcalc_obs.h test_contrib.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/contrib' make[4]: Leaving directory '/build/clipper-2.1.20160809/clipper/contrib' make[3]: Leaving directory '/build/clipper-2.1.20160809/clipper/contrib' make[3]: Entering directory '/build/clipper-2.1.20160809/clipper' make[4]: Entering directory '/build/clipper-2.1.20160809/clipper' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf' /bin/bash ../libtool --mode=install /usr/bin/install -c mmdb/libclipper-mmdb.la minimol/libclipper-minimol.la phs/libclipper-phs.la cif/libclipper-cif.la ccp4/libclipper-ccp4.la cns/libclipper-cns.la fortran/libclipper-fortran.la '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf' libtool: warning: relinking 'mmdb/libclipper-mmdb.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o mmdb/libclipper-mmdb.la -rpath /usr/lib/arm-linux-gnueabihf mmdb/clipper_mmdb.lo core/libclipper-core.la -lmmdb2 -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o mmdb/.libs/clipper_mmdb.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -lmmdb2 -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-mmdb.so.2 -o mmdb/.libs/libclipper-mmdb.so.2.0.1 libtool: install: /usr/bin/install -c mmdb/.libs/libclipper-mmdb.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-mmdb.so.2.0.1 libclipper-mmdb.so.2 || { rm -f libclipper-mmdb.so.2 && ln -s libclipper-mmdb.so.2.0.1 libclipper-mmdb.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-mmdb.so.2.0.1 libclipper-mmdb.so || { rm -f libclipper-mmdb.so && ln -s libclipper-mmdb.so.2.0.1 libclipper-mmdb.so; }; }) libtool: install: /usr/bin/install -c mmdb/.libs/libclipper-mmdb.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.la libtool: warning: relinking 'minimol/libclipper-minimol.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o minimol/libclipper-minimol.la -rpath /usr/lib/arm-linux-gnueabihf minimol/minimol.lo minimol/container_minimol.lo minimol/minimol_data.lo minimol/minimol_io.lo minimol/minimol_seq.lo minimol/minimol_utils.lo core/libclipper-core.la mmdb/libclipper-mmdb.la -lmmdb2 -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o minimol/.libs/minimol.o minimol/.libs/container_minimol.o minimol/.libs/minimol_data.o minimol/.libs/minimol_io.o minimol/.libs/minimol_seq.o minimol/.libs/minimol_utils.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -lclipper-mmdb -lmmdb2 -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-minimol.so.2 -o minimol/.libs/libclipper-minimol.so.2.0.1 libtool: install: /usr/bin/install -c minimol/.libs/libclipper-minimol.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-minimol.so.2.0.1 libclipper-minimol.so.2 || { rm -f libclipper-minimol.so.2 && ln -s libclipper-minimol.so.2.0.1 libclipper-minimol.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-minimol.so.2.0.1 libclipper-minimol.so || { rm -f libclipper-minimol.so && ln -s libclipper-minimol.so.2.0.1 libclipper-minimol.so; }; }) libtool: install: /usr/bin/install -c minimol/.libs/libclipper-minimol.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-minimol.la libtool: warning: relinking 'phs/libclipper-phs.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o phs/libclipper-phs.la -rpath /usr/lib/arm-linux-gnueabihf phs/phs_io.lo core/libclipper-core.la -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o phs/.libs/phs_io.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-phs.so.2 -o phs/.libs/libclipper-phs.so.2.0.1 libtool: install: /usr/bin/install -c phs/.libs/libclipper-phs.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-phs.so.2.0.1 libclipper-phs.so.2 || { rm -f libclipper-phs.so.2 && ln -s libclipper-phs.so.2.0.1 libclipper-phs.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-phs.so.2.0.1 libclipper-phs.so || { rm -f libclipper-phs.so && ln -s libclipper-phs.so.2.0.1 libclipper-phs.so; }; }) libtool: install: /usr/bin/install -c phs/.libs/libclipper-phs.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-phs.la libtool: warning: relinking 'cif/libclipper-cif.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o cif/libclipper-cif.la -rpath /usr/lib/arm-linux-gnueabihf cif/cif_data_io.lo core/libclipper-core.la -lmmdb2 -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o cif/.libs/cif_data_io.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -lmmdb2 -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-cif.so.2 -o cif/.libs/libclipper-cif.so.2.0.1 libtool: install: /usr/bin/install -c cif/.libs/libclipper-cif.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-cif.so.2.0.1 libclipper-cif.so.2 || { rm -f libclipper-cif.so.2 && ln -s libclipper-cif.so.2.0.1 libclipper-cif.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-cif.so.2.0.1 libclipper-cif.so || { rm -f libclipper-cif.so && ln -s libclipper-cif.so.2.0.1 libclipper-cif.so; }; }) libtool: install: /usr/bin/install -c cif/.libs/libclipper-cif.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cif.la libtool: warning: relinking 'ccp4/libclipper-ccp4.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o ccp4/libclipper-ccp4.la -rpath /usr/lib/arm-linux-gnueabihf ccp4/ccp4_mtz_types.lo ccp4/ccp4_mtz_io.lo ccp4/ccp4_map_io.lo ccp4/ccp4_utils.lo core/libclipper-core.la -lccp4c -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o ccp4/.libs/ccp4_mtz_types.o ccp4/.libs/ccp4_mtz_io.o ccp4/.libs/ccp4_map_io.o ccp4/.libs/ccp4_utils.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -lccp4c -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-ccp4.so.2 -o ccp4/.libs/libclipper-ccp4.so.2.0.1 libtool: install: /usr/bin/install -c ccp4/.libs/libclipper-ccp4.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-ccp4.so.2.0.1 libclipper-ccp4.so.2 || { rm -f libclipper-ccp4.so.2 && ln -s libclipper-ccp4.so.2.0.1 libclipper-ccp4.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-ccp4.so.2.0.1 libclipper-ccp4.so || { rm -f libclipper-ccp4.so && ln -s libclipper-ccp4.so.2.0.1 libclipper-ccp4.so; }; }) libtool: install: /usr/bin/install -c ccp4/.libs/libclipper-ccp4.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.la libtool: warning: relinking 'cns/libclipper-cns.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o cns/libclipper-cns.la -rpath /usr/lib/arm-linux-gnueabihf cns/cns_hkl_io.lo cns/cns_map_io.lo core/libclipper-core.la -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o cns/.libs/cns_hkl_io.o cns/.libs/cns_map_io.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-cns.so.2 -o cns/.libs/libclipper-cns.so.2.0.1 libtool: install: /usr/bin/install -c cns/.libs/libclipper-cns.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-cns.so.2.0.1 libclipper-cns.so.2 || { rm -f libclipper-cns.so.2 && ln -s libclipper-cns.so.2.0.1 libclipper-cns.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-cns.so.2.0.1 libclipper-cns.so || { rm -f libclipper-cns.so && ln -s libclipper-cns.so.2.0.1 libclipper-cns.so; }; }) libtool: install: /usr/bin/install -c cns/.libs/libclipper-cns.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cns.la libtool: warning: relinking 'fortran/libclipper-fortran.la' libtool: install: (cd /build/clipper-2.1.20160809/clipper; /bin/bash "/build/clipper-2.1.20160809/libtool" --tag CXX --mode=relink g++ -g -O2 -ffile-prefix-map=/build/clipper-2.1.20160809=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++98 -version-info 2:1 -Wl,-z,relro -o fortran/libclipper-fortran.la -rpath /usr/lib/arm-linux-gnueabihf fortran/f_interface.lo core/libclipper-core.la contrib/libclipper-contrib.la -lm -inst-prefix-dir /build/clipper-2.1.20160809/debian/tmp) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/8/crtbeginS.o fortran/.libs/f_interface.o -L/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lclipper-core -lclipper-contrib -L/usr/lib/gcc/arm-linux-gnueabihf/8 -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/8/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/8/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/8/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-soname -Wl,libclipper-fortran.so.2 -o fortran/.libs/libclipper-fortran.so.2.0.1 libtool: install: /usr/bin/install -c fortran/.libs/libclipper-fortran.so.2.0.1T /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2.0.1 libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-fortran.so.2.0.1 libclipper-fortran.so.2 || { rm -f libclipper-fortran.so.2 && ln -s libclipper-fortran.so.2.0.1 libclipper-fortran.so.2; }; }) libtool: install: (cd /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libclipper-fortran.so.2.0.1 libclipper-fortran.so || { rm -f libclipper-fortran.so && ln -s libclipper-fortran.so.2.0.1 libclipper-fortran.so; }; }) libtool: install: /usr/bin/install -c fortran/.libs/libclipper-fortran.lai /build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-fortran.la libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/ccp4' /usr/bin/install -c -m 644 ccp4/ccp4_map_io.h ccp4/ccp4_mtz_io.h ccp4/ccp4_mtz_types.h ccp4/ccp4_utils.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/ccp4' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/cif' /usr/bin/install -c -m 644 cif/cif_data_io.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/cif' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/cns' /usr/bin/install -c -m 644 cns/cns_hkl_io.h cns/cns_map_io.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/cns' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/minimol' /usr/bin/install -c -m 644 minimol/container_minimol.h minimol/minimol_data.h minimol/minimol_seq.h minimol/minimol.h minimol/minimol_io.h minimol/minimol_utils.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/minimol' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/mmdb' /usr/bin/install -c -m 644 mmdb/clipper_mmdb.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/mmdb' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/phs' /usr/bin/install -c -m 644 phs/phs_io.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper/phs' /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper' /usr/bin/install -c -m 644 clipper-ccp4.h clipper-contrib.h clipper-phs.h clipper-cctbx.h clipper-minimol.h clipper.h clipper-cif.h clipper-mmdb.h minimal-clipper-hkl.h clipper-cns.h minimal-clipper-map.h '/build/clipper-2.1.20160809/debian/tmp/usr/include/clipper' make[4]: Leaving directory '/build/clipper-2.1.20160809/clipper' make[3]: Leaving directory '/build/clipper-2.1.20160809/clipper' make[2]: Leaving directory '/build/clipper-2.1.20160809/clipper' Making install in examples make[2]: Entering directory '/build/clipper-2.1.20160809/examples' make[3]: Entering directory '/build/clipper-2.1.20160809/examples' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/clipper-2.1.20160809/examples' make[2]: Leaving directory '/build/clipper-2.1.20160809/examples' make[2]: Entering directory '/build/clipper-2.1.20160809' make[3]: Entering directory '/build/clipper-2.1.20160809' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig' /usr/bin/install -c -m 644 clipper.pc '/build/clipper-2.1.20160809/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig' make[3]: Leaving directory '/build/clipper-2.1.20160809' make[2]: Leaving directory '/build/clipper-2.1.20160809' make[1]: Leaving directory '/build/clipper-2.1.20160809' dh_install "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d debian/libclipper-dev//usr/include cp --reflink=auto -a debian/tmp/usr/include/clipper debian/libclipper-dev//usr/include/ install -d debian/libclipper-dev//usr/lib/arm-linux-gnueabihf cp --reflink=auto -a debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cif.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cns.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-core.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-phs.so debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig debian/libclipper-dev//usr/lib/arm-linux-gnueabihf/ install -d debian/.debhelper/generated/libclipper-dev install -d debian/libclipper2//usr/lib/arm-linux-gnueabihf cp --reflink=auto -a debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2.0.1 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2 debian/tmp/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2.0.1 debian/libclipper2//usr/lib/arm-linux-gnueabihf/ install -d debian/.debhelper/generated/libclipper2 install -d debian/.debhelper/generated/libclipper-doc dh_installdocs "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d debian/libclipper-dev/usr/share/doc/libclipper-dev install -p -m0644 debian/copyright debian/libclipper-dev/usr/share/doc/libclipper-dev/copyright install -d debian/libclipper2/usr/share/doc/libclipper2 install -p -m0644 debian/copyright debian/libclipper2/usr/share/doc/libclipper2/copyright install -d debian/libclipper-doc/usr/share/doc/libclipper-doc install -d debian/libclipper-doc/usr/share/doc/libclipper-dev cp --reflink=auto -a ./debian/index.html debian/libclipper-doc/usr/share/doc/libclipper-dev cd './doc/html/..' && find 'html' \( -type f -or -type l \) -and ! -empty -print0 | LC_ALL=C sort -z | xargs -0 -I {} cp --reflink=auto --parents -dp {} /build/clipper-2.1.20160809/debian/libclipper-doc/usr/share/doc/libclipper-dev chown -R 0:0 debian/libclipper-doc/usr/share/doc chmod -R u\+rw,go=rX debian/libclipper-doc/usr/share/doc install -p -m0644 debian/copyright debian/libclipper-doc/usr/share/doc/libclipper-doc/copyright install -d debian/libclipper-doc/usr/share/doc-base/ install -p -m0644 debian/libclipper-doc.doc-base debian/libclipper-doc/usr/share/doc-base/clipper dh_installchangelogs "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -p -m0644 debian/changelog debian/libclipper-doc/usr/share/doc/libclipper-doc/changelog.Debian install -p -m0644 ./ChangeLog debian/libclipper-doc/usr/share/doc/libclipper-doc/changelog install -p -m0644 debian/changelog debian/libclipper-dev/usr/share/doc/libclipper-dev/changelog.Debian install -p -m0644 ./ChangeLog debian/libclipper-dev/usr/share/doc/libclipper-dev/changelog install -p -m0644 debian/changelog debian/libclipper2/usr/share/doc/libclipper2/changelog.Debian install -p -m0644 ./ChangeLog debian/libclipper2/usr/share/doc/libclipper2/changelog dh_installexamples "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/c2test.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/ccad.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/cctbxtest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/ciftophs.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/cmaplocal.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/cns2mtz.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/cnstest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/diffmap.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/ffttest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/fomvar.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/ftndemo_lib.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/maketestdata.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/maphist.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/maptest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/memtest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/mmtest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/mtzcut.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/mtziotest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/mtzmissing.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/mtztest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/octest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/phstest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/reftest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/reftest2.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/rfltest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/sftest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/sgtest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/sktest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/symtest.cpp debian/libclipper-doc/usr/share/doc/libclipper-dev/examples cp --reflink=auto -a ./examples/cns2mtz.h debian/libclipper-doc/usr/share/doc/libclipper-dev/examples dh_installinit "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" dh_lintian "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d debian/libclipper2/usr/share/lintian/overrides install -p -m0644 debian/libclipper2.lintian-overrides debian/libclipper2/usr/share/lintian/overrides/libclipper2 dh_perl "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" dh_link "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-core.so ln -s libclipper-core.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-core.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so ln -s libclipper-minimol.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so ln -s libclipper-mmdb.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so ln -s libclipper-ccp4.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-cif.so ln -s libclipper-cif.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-cif.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so ln -s libclipper-fortran.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so ln -s libclipper-contrib.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-cns.so ln -s libclipper-cns.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-cns.so rm -f debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-phs.so ln -s libclipper-phs.so.2.0.1 debian/libclipper-dev/usr/lib/arm-linux-gnueabihf/libclipper-phs.so rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2 ln -s libclipper-core.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2 ln -s libclipper-phs.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2 ln -s libclipper-cns.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2 ln -s libclipper-mmdb.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2 ln -s libclipper-minimol.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2 ln -s libclipper-fortran.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2 ln -s libclipper-ccp4.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2 ln -s libclipper-contrib.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2 rm -f debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2 ln -s libclipper-cif.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2 dh_strip_nondeterminism "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" Using 1530435670 as canonical time Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1CResolution.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1NXmap__base_1_1Map__reference__base.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Property.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Message__ctor.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Grad__frac.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1Flag__bool.png using 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using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Spacegroup.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1Flag.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1FFTmap__p1.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1HKL__info.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Mat33.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Message__base.png using File::StripNondeterminism::handlers::png Normalizing 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using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1I__sigI__ano.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/splitbar.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Datatype__base.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Atom__list.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Vec3.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1I__sigI.png using File::StripNondeterminism::handlers::png Normalizing 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debian/libclipper-doc/usr/share/doc/libclipper-dev/html/nav_f.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1HKL__info_1_1HKL__reference__base.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/tab_b.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1CSpacegroup.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/folderopen.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1HKL__info_1_1HKL__reference__index.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1String.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Test__core.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Coord__grid.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/folderclosed.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Container.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Message__info.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1ResolutionFn__nonlinear.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1TargetFn__scaleLogI1I2.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Isymop.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1E__sigE.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/doc.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1NX__operator.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1FFTmap__base.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Test__base.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1D__sigD.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Grid__range.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Curv__orth.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1BasisFn__binner.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1NXmap.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/hierarchy.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Resolution.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Ramachandran.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1BasisFn__spline.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1NXmap__base.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1TargetFn__scaleEsq.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/tab_h.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1HKL__data__cacheobj.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1U__aniso__orth.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/bc_s.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Symop.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1HKL.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Generic__ordinal.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Grad__orth.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1F__phi.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1Phi__fom.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Spgr__descr.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1TargetFn__sigmaa__omegaa.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/hkl_objs.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Cell.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Cell__descr.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1BasisFn__aniso__gaussian.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1datatypes_1_1F__sigF.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Xmap__base_1_1Map__reference__index.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Resolution__ordinal.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1Coord__reci__frac.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1CHKL__info.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1CNXmap__operator.png using File::StripNondeterminism::handlers::png Normalizing debian/libclipper-doc/usr/share/doc/libclipper-dev/html/classclipper_1_1TargetFn__sigmaa.png using File::StripNondeterminism::handlers::png dh_compress "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" cd debian/libclipper2 cd debian/libclipper-dev cd debian/libclipper-doc chmod a-x usr/share/doc/libclipper2/changelog usr/share/doc/libclipper2/changelog.Debian gzip -9nf usr/share/doc/libclipper2/changelog usr/share/doc/libclipper2/changelog.Debian cd '/build/clipper-2.1.20160809' chmod a-x usr/share/doc/libclipper-dev/changelog usr/share/doc/libclipper-dev/changelog.Debian gzip -9nf usr/share/doc/libclipper-dev/changelog usr/share/doc/libclipper-dev/changelog.Debian cd '/build/clipper-2.1.20160809' chmod a-x usr/share/doc/libclipper-dev/examples/ccad.cpp usr/share/doc/libclipper-dev/examples/cctbxtest.cpp usr/share/doc/libclipper-dev/examples/cns2mtz.cpp usr/share/doc/libclipper-dev/examples/cns2mtz.h usr/share/doc/libclipper-dev/examples/ffttest.cpp usr/share/doc/libclipper-dev/examples/maketestdata.cpp usr/share/doc/libclipper-dev/examples/memtest.cpp usr/share/doc/libclipper-dev/examples/mmtest.cpp usr/share/doc/libclipper-dev/examples/mtztest.cpp usr/share/doc/libclipper-dev/examples/octest.cpp usr/share/doc/libclipper-dev/examples/reftest.cpp usr/share/doc/libclipper-dev/examples/reftest2.cpp usr/share/doc/libclipper-dev/examples/rfltest.cpp usr/share/doc/libclipper-dev/examples/sftest.cpp usr/share/doc/libclipper-dev/examples/sgtest.cpp usr/share/doc/libclipper-dev/examples/sktest.cpp usr/share/doc/libclipper-dev/examples/symtest.cpp usr/share/doc/libclipper-doc/changelog usr/share/doc/libclipper-doc/changelog.Debian gzip -9nf usr/share/doc/libclipper-dev/examples/ccad.cpp usr/share/doc/libclipper-dev/examples/cctbxtest.cpp usr/share/doc/libclipper-dev/examples/cns2mtz.cpp usr/share/doc/libclipper-dev/examples/cns2mtz.h usr/share/doc/libclipper-dev/examples/ffttest.cpp usr/share/doc/libclipper-dev/examples/maketestdata.cpp usr/share/doc/libclipper-dev/examples/memtest.cpp usr/share/doc/libclipper-dev/examples/mmtest.cpp usr/share/doc/libclipper-dev/examples/mtztest.cpp usr/share/doc/libclipper-dev/examples/octest.cpp usr/share/doc/libclipper-dev/examples/reftest.cpp usr/share/doc/libclipper-dev/examples/reftest2.cpp usr/share/doc/libclipper-dev/examples/rfltest.cpp usr/share/doc/libclipper-dev/examples/sftest.cpp usr/share/doc/libclipper-dev/examples/sgtest.cpp usr/share/doc/libclipper-dev/examples/sktest.cpp usr/share/doc/libclipper-dev/examples/symtest.cpp usr/share/doc/libclipper-doc/changelog usr/share/doc/libclipper-doc/changelog.Debian cd '/build/clipper-2.1.20160809' dh_fixperms "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" find debian/libclipper-dev -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/libclipper2 -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/libclipper-doc -true -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/libclipper2 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libclipper-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libclipper2/usr/share/doc -type f -a -true -a ! -regex 'debian/libclipper2/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libclipper-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/libclipper-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libclipper2/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libclipper-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libclipper2/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libclipper-dev/usr/include -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libclipper-doc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libclipper2 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libclipper2/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/libclipper-dev -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libclipper-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/libclipper-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/libclipper-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libclipper-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libclipper-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 dh_missing "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" dh_strip "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/17 objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/17/e333caed26d5d7ffa21e3c819b37cbe9337b81.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/17/e333caed26d5d7ffa21e3c819b37cbe9337b81.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/17/e333caed26d5d7ffa21e3c819b37cbe9337b81.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/17/e333caed26d5d7ffa21e3c819b37cbe9337b81.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/c8 objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/c8/6fdce0a640297cebc07dc0a097ad1ed68ed0cc.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/c8/6fdce0a640297cebc07dc0a097ad1ed68ed0cc.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/c8/6fdce0a640297cebc07dc0a097ad1ed68ed0cc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/c8/6fdce0a640297cebc07dc0a097ad1ed68ed0cc.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/4f objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/4f/dade0c67c60a12ec7603c6318b1023d97ccaae.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/4f/dade0c67c60a12ec7603c6318b1023d97ccaae.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/4f/dade0c67c60a12ec7603c6318b1023d97ccaae.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/4f/dade0c67c60a12ec7603c6318b1023d97ccaae.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/de objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/de/6acfbe1e2f2bf07b2c644f01e33b45712a16c5.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/de/6acfbe1e2f2bf07b2c644f01e33b45712a16c5.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/de/6acfbe1e2f2bf07b2c644f01e33b45712a16c5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/de/6acfbe1e2f2bf07b2c644f01e33b45712a16c5.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d5 objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d5/30fec236f6129bdda4ad8964dcf87c011ebafa.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d5/30fec236f6129bdda4ad8964dcf87c011ebafa.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d5/30fec236f6129bdda4ad8964dcf87c011ebafa.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d5/30fec236f6129bdda4ad8964dcf87c011ebafa.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/63 objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/63/dd7d615614c4526f793000d0010abb69818277.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/63/dd7d615614c4526f793000d0010abb69818277.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/63/dd7d615614c4526f793000d0010abb69818277.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/63/dd7d615614c4526f793000d0010abb69818277.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d9 objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d9/feb4eba60c6572e2c452b02e60452eeb49dc01.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d9/feb4eba60c6572e2c452b02e60452eeb49dc01.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d9/feb4eba60c6572e2c452b02e60452eeb49dc01.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/d9/feb4eba60c6572e2c452b02e60452eeb49dc01.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/19 objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/19/ee42bceb9a271af17572e175b7569653c09b35.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/19/ee42bceb9a271af17572e175b7569653c09b35.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/19/ee42bceb9a271af17572e175b7569653c09b35.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/19/ee42bceb9a271af17572e175b7569653c09b35.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/cc objcopy --only-keep-debug --compress-debug-sections debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2.0.1 debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/cc/484e22d9224edd969f11efa083edddfd83473e.debug chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/cc/484e22d9224edd969f11efa083edddfd83473e.debug chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/cc/484e22d9224edd969f11efa083edddfd83473e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libclipper2/dbgsym-root/usr/lib/debug/.build-id/cc/484e22d9224edd969f11efa083edddfd83473e.debug debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2.0.1 install -d debian/.debhelper/libclipper2/dbgsym-root/usr/share/doc ln -s libclipper2 debian/.debhelper/libclipper2/dbgsym-root/usr/share/doc/libclipper2-dbgsym dh_makeshlibs "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" rm -f debian/libclipper-dev/DEBIAN/shlibs rm -f debian/libclipper2/DEBIAN/shlibs install -d debian/libclipper2/DEBIAN echo "libclipper-ccp4 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-cif 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-cns 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-contrib 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-core 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-fortran 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-minimol 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-mmdb 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs echo "libclipper-phs 2 libclipper2" >> debian/libclipper2/DEBIAN/shlibs chmod 0644 -- debian/libclipper2/DEBIAN/shlibs chown 0:0 -- debian/libclipper2/DEBIAN/shlibs mv debian/.debhelper/generated/libclipper2/triggers.new debian/.debhelper/generated/libclipper2/triggers rm -f debian/libclipper-doc/DEBIAN/shlibs dh_shlibdeps "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" dpkg-shlibdeps -Tdebian/libclipper2.substvars debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2.0.1 debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2.0.1 dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-minimol.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-core.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cif.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-fortran.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-contrib.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-phs.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-cns.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-mmdb.so.2.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libclipper2/usr/lib/arm-linux-gnueabihf/libclipper-ccp4.so.2.0.1 found in none of the libraries dh_installdeb "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" install -d debian/libclipper-dev/DEBIAN install -p -m0644 debian/.debhelper/generated/libclipper2/triggers debian/libclipper2/DEBIAN/triggers install -d debian/libclipper-doc/DEBIAN dh_gencontrol "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" echo misc:Depends= >> debian/libclipper-dev.substvars echo misc:Pre-Depends= >> debian/libclipper-dev.substvars dpkg-gencontrol -plibclipper-dev -ldebian/changelog -Tdebian/libclipper-dev.substvars -Pdebian/libclipper-dev echo misc:Depends= >> debian/libclipper-doc.substvars echo misc:Pre-Depends= >> debian/libclipper-doc.substvars dpkg-gencontrol -plibclipper-doc -ldebian/changelog -Tdebian/libclipper-doc.substvars -Pdebian/libclipper-doc echo misc:Depends= >> debian/libclipper2.substvars echo misc:Pre-Depends= >> debian/libclipper2.substvars install -d debian/.debhelper/libclipper2/dbgsym-root/DEBIAN dpkg-gencontrol -plibclipper2 -ldebian/changelog -Tdebian/libclipper2.substvars -Pdebian/.debhelper/libclipper2/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -DPackage=libclipper2-dbgsym "-DDepends=libclipper2 (= \${binary:Version})" "-DDescription=debug symbols for libclipper2" "-DBuild-Ids=17e333caed26d5d7ffa21e3c819b37cbe9337b81 19ee42bceb9a271af17572e175b7569653c09b35 4fdade0c67c60a12ec7603c6318b1023d97ccaae 63dd7d615614c4526f793000d0010abb69818277 c86fdce0a640297cebc07dc0a097ad1ed68ed0cc cc484e22d9224edd969f11efa083edddfd83473e d530fec236f6129bdda4ad8964dcf87c011ebafa d9feb4eba60c6572e2c452b02e60452eeb49dc01 de6acfbe1e2f2bf07b2c644f01e33b45712a16c5" -DSection=debug "-DReplaces=libclipper2-dbg (<< 2.1.20160809-1~)" "-DBreaks=libclipper2-dbg (<< 2.1.20160809-1~)" chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/DEBIAN/control chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/DEBIAN/control dpkg-gencontrol -plibclipper2 -ldebian/changelog -Tdebian/libclipper2.substvars -Pdebian/libclipper2 chmod 0644 -- debian/libclipper-dev/DEBIAN/control chown 0:0 -- debian/libclipper-dev/DEBIAN/control chmod 0644 -- debian/libclipper2/DEBIAN/control chown 0:0 -- debian/libclipper2/DEBIAN/control chmod 0644 -- debian/libclipper-doc/DEBIAN/control chown 0:0 -- debian/libclipper-doc/DEBIAN/control dh_md5sums "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" cd debian/libclipper2 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/libclipper-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libclipper2/DEBIAN/md5sums chown 0:0 -- debian/libclipper2/DEBIAN/md5sums cd debian/libclipper-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libclipper-dev/DEBIAN/md5sums chown 0:0 -- debian/libclipper-dev/DEBIAN/md5sums chmod 0644 -- debian/libclipper-doc/DEBIAN/md5sums chown 0:0 -- debian/libclipper-doc/DEBIAN/md5sums cd debian/.debhelper/libclipper2/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/libclipper2/dbgsym-root/DEBIAN/md5sums chown 0:0 -- debian/.debhelper/libclipper2/dbgsym-root/DEBIAN/md5sums dh_builddeb "-O--ddeb-migration=libclipper2-dbg (<< 2.1.20160809-1~)" dpkg-deb --build debian/.debhelper/libclipper2/dbgsym-root .. dpkg-deb --build debian/libclipper-dev .. dpkg-deb: building package 'libclipper2-dbgsym' in '../libclipper2-dbgsym_2.1.20160809-2_armhf.deb'. dpkg-deb: building package 'libclipper-dev' in '../libclipper-dev_2.1.20160809-2_armhf.deb'. dpkg-deb --build debian/libclipper2 .. dpkg-deb: building package 'libclipper2' in '../libclipper2_2.1.20160809-2_armhf.deb'. dpkg-deb --build debian/libclipper-doc .. dpkg-deb: building package 'libclipper-doc' in '../libclipper-doc_2.1.20160809-2_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../clipper_2.1.20160809-2_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration 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/17381 and its subdirectories I: Current time: Sun Aug 2 09:35:07 -12 2020 I: pbuilder-time-stamp: 1596404107