Sun Aug 2 15:40:28 UTC 2020 I: starting to build relion/buster/i386 on jenkins on '2020-08-02 15:40' Sun Aug 2 15:40:28 UTC 2020 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_15/5106/console.log Sun Aug 2 15:40:28 UTC 2020 I: Downloading source for buster/relion=1.4+dfsg-4 --2020-08-02 15:40:28-- http://deb.debian.org/debian/pool/main/r/relion/relion_1.4+dfsg-4.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 3045 (3.0K) Saving to: ‘relion_1.4+dfsg-4.dsc’ 0K .. 100% 17.7M=0s 2020-08-02 15:40:28 (17.7 MB/s) - ‘relion_1.4+dfsg-4.dsc’ saved [3045/3045] Sun Aug 2 15:40:29 UTC 2020 I: relion_1.4+dfsg-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: relion Binary: relion-bin, relion-bin+mpi, relion-bin+gui, relion-bin+mpi+gui, librelion-dev-common, librelion-dev, librelion+mpi-dev, librelion+gui-dev, librelion+mpi+gui-dev, librelion-1.4-1, librelion+mpi-1.4-1, librelion+gui-1.4-1, librelion+mpi+gui-1.4-1 Architecture: amd64 i386 all Version: 1.4+dfsg-4 Maintainer: Debian Med Packaging Team Uploaders: Roland Fehrenbacher , Navid Fehrenbacher , Goswin von Brederlow , Andreas Tille Homepage: http://www2.mrc-lmb.cam.ac.uk/relion/index.php/Main_Page Standards-Version: 4.1.4 Vcs-Browser: https://salsa.debian.org/med-team/relion Vcs-Git: https://salsa.debian.org/med-team/relion.git Build-Depends: debhelper (>= 11~), dh-exec, libfltk1.3-dev, libfftw3-dev, libopenmpi-dev Package-List: librelion+gui-1.4-1 deb libs optional arch=amd64,i386 librelion+gui-dev deb libdevel optional arch=amd64,i386 librelion+mpi+gui-1.4-1 deb libs optional arch=i386,amd64 librelion+mpi+gui-dev deb libdevel optional arch=amd64,i386 librelion+mpi-1.4-1 deb libs optional arch=amd64,i386 librelion+mpi-dev deb libdevel optional arch=amd64,i386 librelion-1.4-1 deb libs optional arch=amd64,i386 librelion-dev deb libdevel optional arch=amd64,i386 librelion-dev-common deb libdevel optional arch=all relion-bin deb science optional arch=amd64,i386 relion-bin+gui deb science optional arch=amd64,i386 relion-bin+mpi deb science optional arch=amd64,i386 relion-bin+mpi+gui deb science optional arch=amd64,i386 Checksums-Sha1: 9196d1f0ad262df05e955f9bd20a36be5d21c1b0 548208 relion_1.4+dfsg.orig.tar.xz 0401cfbd908ca0e20ac329b54dc89064f8769ebe 8344 relion_1.4+dfsg-4.debian.tar.xz Checksums-Sha256: 3866f1e69f825ab946c9782f484ff4a64f63fbd2152fc1f63a62373d61c37c1e 548208 relion_1.4+dfsg.orig.tar.xz decc35ec3a44ab14455e97c3bdc64a8dfa8131f9e6bb431eec126e26e488842e 8344 relion_1.4+dfsg-4.debian.tar.xz Files: e570e18a1484a37c6cdcba64583aae90 548208 relion_1.4+dfsg.orig.tar.xz 6dbbdab7bdca852823bca0b27b403eda 8344 relion_1.4+dfsg-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlsiX80RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGUBRAAgBpEWxU2WP9/ct1GvxumN6cPABMcy+no 6C0FaDvqlD5zB5hJ4BfcbajDZ2xzDQaonB9bzh8kn2MaMYsWfzeIM7IIxMIKjTVs rZZVQVdOTjii49Bgmp4uu6zM2qgViaZxfizaOE98OVCMqpoWqQ4RAUQAnK35i2O7 R4njShRkmCF+biLtmiz8VmaUqflws4G5HQiLlGKwO4rtPECcl/GL5b11AhFUmqub xuQzrf1UljiUNYnaQzcofVfw1oKgM31NRgcFkUVttPwMnh+GtCuwyzm/FEVE/Ogr y02wJJBQBDEyoo04lbXCrf9YfnSyyIKa5zTBVJV4OH45xY+xUEdAik/0vSGwUrtC xRHr8RfY8FvEZzG0nVZb2FmujPJoq0fS6C4XG6/a5IVs9VcdydX6uS7al8xRCz2u JdaqDC5eP2CWcF6R2EhYo9i1v58FGevhIAGK24EvWbo2t+kWg6tO5YQ9mmYFZhjp 71c8Za5mNBAQialXoOfimasIANLIO/WqHvJ1S5ud+fsgldIg6zEb4kRXQ34NGSpd QvtigmDoWZQXVJntPOud9O82pUcN3nDRh1/VSe7yhwtQ9FBWmFpUYFX7xdRePQDQ FxptxQkDhxzZuzZUf+azEFncZQyHBTCe9EO2ss5QYXXhrDkiJUQHhbSK7KLskoDo RQZt6l9OJlM= =Xtkv -----END PGP SIGNATURE----- Sun Aug 2 15:40:29 UTC 2020 I: Checking whether the package is not for us Sun Aug 2 15:40:29 UTC 2020 I: Starting 1st build on remote node profitbricks-build12-i386.debian.net. Sun Aug 2 15:40:29 UTC 2020 I: Preparing to do remote build '1' on profitbricks-build12-i386.debian.net. Sun Aug 2 16:02:41 UTC 2020 I: Deleting $TMPDIR on profitbricks-build12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Aug 2 03:40:31 -12 2020 I: pbuilder-time-stamp: 1596382831 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: using eatmydata during job I: Copying source file I: copying [relion_1.4+dfsg-4.dsc] I: copying [./relion_1.4+dfsg.orig.tar.xz] I: copying [./relion_1.4+dfsg-4.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 Thu Jun 14 00:30:05 2018 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./relion_1.4+dfsg-4.dsc dpkg-source: info: extracting relion in relion-1.4+dfsg dpkg-source: info: unpacking relion_1.4+dfsg.orig.tar.xz dpkg-source: info: unpacking relion_1.4+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0001-Fix-fltk-config-path-in-configure.patch dpkg-source: info: applying 0002-Add-ml_optimiser_mpi.cpp-length_fn_ctf-patch.patch dpkg-source: info: applying 0003-Add-enable-gui-flag-to-configure.patch dpkg-source: info: applying 0004-Fix-fltk-header-includes.patch dpkg-source: info: applying 0005-gcc-6.patch dpkg-source: info: applying 0006-correct-copy-overflow.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/13808/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='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=10' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='ebd5cf0c421a415b8345e1b6e0d2ce26' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='13808' 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.St2hcJ6Zs4/pbuilderrc_wyPv --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.St2hcJ6Zs4/b1 --logfile b1/build.log relion_1.4+dfsg-4.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux profitbricks-build12-i386 4.19.0-10-686-pae #1 SMP Debian 4.19.132-1 (2020-07-24) i686 GNU/Linux I: ls -l /bin total 5480 -rwxr-xr-x 1 root root 1302248 Apr 17 2019 bash -rwxr-xr-x 3 root root 38280 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38280 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 38280 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 17768 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 38692 Feb 28 2019 cat -rwxr-xr-x 1 root root 75588 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 63268 Feb 28 2019 chmod -rwxr-xr-x 1 root root 75588 Feb 28 2019 chown -rwxr-xr-x 1 root root 153732 Feb 28 2019 cp -rwxr-xr-x 1 root root 132820 Jan 17 2019 dash -rwxr-xr-x 1 root root 120676 Feb 28 2019 date -rwxr-xr-x 1 root root 92040 Feb 28 2019 dd -rwxr-xr-x 1 root root 100620 Feb 28 2019 df -rwxr-xr-x 1 root root 149736 Feb 28 2019 dir -rwxr-xr-x 1 root root 79412 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 34532 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 34532 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 67700 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 30112 Apr 22 07:38 fusermount -rwxr-xr-x 1 root root 206392 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 100952 Jan 5 2019 gzip -rwxr-xr-x 1 root root 21916 Sep 26 2018 hostname -rwxr-xr-x 1 root root 79752 Feb 28 2019 ln -rwxr-xr-x 1 root root 55400 Jul 26 2018 login -rwxr-xr-x 1 root root 149736 Feb 28 2019 ls -rwxr-xr-x 1 root root 112032 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 87972 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 79748 Feb 28 2019 mknod -rwxr-xr-x 1 root root 46916 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 42348 Jan 9 2019 more -rwsr-xr-x 1 root root 50592 Jan 9 2019 mount -rwxr-xr-x 1 root root 13724 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 157832 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 38660 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 46852 Feb 28 2019 readlink -rwxr-xr-x 1 root root 75588 Feb 28 2019 rm -rwxr-xr-x 1 root root 42756 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 22276 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 1 20:25 sh -> dash -rwxr-xr-x 1 root root 34532 Feb 28 2019 sleep -rwxr-xr-x 1 root root 79652 Feb 28 2019 stty -rwsr-xr-x 1 root root 71072 Jan 9 2019 su -rwxr-xr-x 1 root root 34564 Feb 28 2019 sync -rwxr-xr-x 1 root root 504024 Apr 23 2019 tar -rwxr-xr-x 1 root root 13860 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 104292 Feb 28 2019 touch -rwxr-xr-x 1 root root 34532 Feb 28 2019 true -rwxr-xr-x 1 root root 17768 Apr 22 07:38 ulockmgr_server -rwsr-xr-x 1 root root 30108 Jan 9 2019 umount -rwxr-xr-x 1 root root 34532 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 149736 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34208 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/13808/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: i386 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~), dh-exec, libfltk1.3-dev, libfftw3-dev, libopenmpi-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19234 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 dh-exec; however: Package dh-exec is not installed. pbuilder-satisfydepends-dummy depends on libfltk1.3-dev; however: Package libfltk1.3-dev is not installed. pbuilder-satisfydepends-dummy depends on libfftw3-dev; however: Package libfftw3-dev is not installed. pbuilder-satisfydepends-dummy depends on libopenmpi-dev; however: Package libopenmpi-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} groff-base{a} ibverbs-providers{a} intltool-debian{a} libarchive-zip-perl{a} libbsd0{a} libcairo2{a} libcroco3{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libelf1{a} libevent-2.1-6{a} libevent-core-2.1-6{a} libevent-pthreads-2.1-6{a} libexpat1{a} libfabric1{a} libfftw3-bin{a} libfftw3-dev{a} libfftw3-double3{a} libfftw3-long3{a} libfftw3-quad3{a} libfftw3-single3{a} libfile-stripnondeterminism-perl{a} libfltk-cairo1.3{a} libfltk-forms1.3{a} libfltk-gl1.3{a} libfltk-images1.3{a} libfltk1.3{a} libfltk1.3-dev{a} libfontconfig1{a} libfreetype6{a} libgfortran5{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0{a} libglu1-mesa{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgssapi-krb5-2{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc5{a} libibverbs-dev{a} libibverbs1{a} libicu63{a} libjpeg62-turbo{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libllvm7{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpipeline1{a} libpixman-1-0{a} libpmix2{a} libpng16-16{a} libpsm-infinipath1{a} libpthread-stubs0-dev{a} librdmacm1{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libxau-dev{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb1{a} libxcb1-dev{a} libxcursor1{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxft2{a} libxinerama1{a} libxml2{a} libxrender1{a} libxshmfence1{a} libxxf86vm1{a} m4{a} man-db{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} po-debconf{a} sensible-utils{a} ucf{a} x11proto-core-dev{a} x11proto-dev{a} xorg-sgml-doctools{a} xtrans-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl fluid krb5-locales libarchive-cpio-perl libcoarrays-openmpi-dev libgl1-mesa-dev libglib2.0-data libglu1-mesa-dev libgpm2 libmail-sendmail-perl lynx shared-mime-info wget xauth xdg-user-dirs 0 packages upgraded, 139 newly installed, 0 to remove and 0 not upgraded. Need to get 67.7 MB of archives. After unpacking 391 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 8 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 9 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 10 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 11 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 12 http://deb.debian.org/debian buster/main i386 libedit2 i386 3.1-20181209-1 [98.2 kB] Get: 13 http://deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 14 http://deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 15 http://deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 16 http://deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1d-0+deb10u3 [1537 kB] Get: 17 http://deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 18 http://deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 19 http://deb.debian.org/debian buster/main i386 openssh-client i386 1:7.9p1-10+deb10u2 [834 kB] Get: 20 http://deb.debian.org/debian buster/main i386 ucf all 3.0038+nmu1 [69.0 kB] Get: 21 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 22 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 23 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 24 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 25 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 26 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 27 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 28 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 29 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 30 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 31 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 32 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 33 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 35 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6+deb10u1 [8451 kB] Get: 36 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 37 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 38 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 39 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 40 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 41 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 42 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 43 http://deb.debian.org/debian buster/main i386 dh-exec i386 0.23.1 [26.8 kB] Get: 44 http://deb.debian.org/debian buster/main i386 fonts-dejavu-core all 2.37-1 [1068 kB] Get: 45 http://deb.debian.org/debian buster/main i386 fontconfig-config all 2.13.1-2 [280 kB] Get: 46 http://deb.debian.org/debian buster/main i386 libnl-3-200 i386 3.4.0-1 [65.8 kB] Get: 47 http://deb.debian.org/debian buster/main i386 libnl-route-3-200 i386 3.4.0-1 [170 kB] Get: 48 http://deb.debian.org/debian buster/main i386 libibverbs1 i386 22.1-1 [53.9 kB] Get: 49 http://deb.debian.org/debian buster/main i386 ibverbs-providers i386 22.1-1 [201 kB] Get: 50 http://deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2+deb10u1 [104 kB] Get: 51 http://deb.debian.org/debian buster/main i386 libpng16-16 i386 1.6.36-6 [301 kB] Get: 52 http://deb.debian.org/debian buster/main i386 libfreetype6 i386 2.9.1-3+deb10u1 [395 kB] Get: 53 http://deb.debian.org/debian buster/main i386 libfontconfig1 i386 2.13.1-2 [357 kB] Get: 54 http://deb.debian.org/debian buster/main i386 libpixman-1-0 i386 0.36.0-1 [541 kB] Get: 55 http://deb.debian.org/debian buster/main i386 libxau6 i386 1:1.0.8-1+b2 [20.3 kB] Get: 56 http://deb.debian.org/debian buster/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 57 http://deb.debian.org/debian buster/main i386 libxcb1 i386 1.13.1-2 [141 kB] Get: 58 http://deb.debian.org/debian buster/main i386 libx11-data all 2:1.6.7-1 [298 kB] Get: 59 http://deb.debian.org/debian buster/main i386 libx11-6 i386 2:1.6.7-1 [778 kB] Get: 60 http://deb.debian.org/debian buster/main i386 libxcb-render0 i386 1.13.1-2 [110 kB] Get: 61 http://deb.debian.org/debian buster/main i386 libxcb-shm0 i386 1.13.1-2 [99.4 kB] Get: 62 http://deb.debian.org/debian buster/main i386 libxext6 i386 2:1.3.3-1+b2 [55.2 kB] Get: 63 http://deb.debian.org/debian buster/main i386 libxrender1 i386 1:0.9.10-1 [34.1 kB] Get: 64 http://deb.debian.org/debian buster/main i386 libcairo2 i386 1.16.0-4 [744 kB] Get: 65 http://deb.debian.org/debian buster/main i386 libdrm-common all 2.4.97-1 [13.8 kB] Get: 66 http://deb.debian.org/debian buster/main i386 libdrm2 i386 2.4.97-1 [42.5 kB] Get: 67 http://deb.debian.org/debian buster/main i386 libdrm-amdgpu1 i386 2.4.97-1 [30.1 kB] Get: 68 http://deb.debian.org/debian buster/main i386 libpciaccess0 i386 0.14-1 [55.7 kB] Get: 69 http://deb.debian.org/debian buster/main i386 libdrm-intel1 i386 2.4.97-1 [72.9 kB] Get: 70 http://deb.debian.org/debian buster/main i386 libdrm-nouveau2 i386 2.4.97-1 [28.0 kB] Get: 71 http://deb.debian.org/debian buster/main i386 libdrm-radeon1 i386 2.4.97-1 [32.5 kB] Get: 72 http://deb.debian.org/debian buster/main i386 libevent-2.1-6 i386 2.1.8-stable-4 [191 kB] Get: 73 http://deb.debian.org/debian buster/main i386 libevent-core-2.1-6 i386 2.1.8-stable-4 [137 kB] Get: 74 http://deb.debian.org/debian buster/main i386 libevent-pthreads-2.1-6 i386 2.1.8-stable-4 [48.1 kB] Get: 75 http://deb.debian.org/debian buster/main i386 libpsm-infinipath1 i386 3.3+20.604758e7-6 [178 kB] Get: 76 http://deb.debian.org/debian buster/main i386 librdmacm1 i386 22.1-1 [68.8 kB] Get: 77 http://deb.debian.org/debian buster/main i386 libfabric1 i386 1.6.2-3 [364 kB] Get: 78 http://deb.debian.org/debian buster/main i386 libfftw3-double3 i386 3.3.8-2 [640 kB] Get: 79 http://deb.debian.org/debian buster/main i386 libfftw3-long3 i386 3.3.8-2 [326 kB] Get: 80 http://deb.debian.org/debian buster/main i386 libfftw3-quad3 i386 3.3.8-2 [1762 kB] Get: 81 http://deb.debian.org/debian buster/main i386 libfftw3-single3 i386 3.3.8-2 [652 kB] Get: 82 http://deb.debian.org/debian buster/main i386 libfftw3-bin i386 3.3.8-2 [53.5 kB] Get: 83 http://deb.debian.org/debian buster/main i386 libfftw3-dev i386 3.3.8-2 [3170 kB] Get: 84 http://deb.debian.org/debian buster/main i386 libxfixes3 i386 1:5.0.3-1 [22.4 kB] Get: 85 http://deb.debian.org/debian buster/main i386 libxcursor1 i386 1:1.1.15-2 [38.2 kB] Get: 86 http://deb.debian.org/debian buster/main i386 libxft2 i386 2.3.2-2 [58.2 kB] Get: 87 http://deb.debian.org/debian buster/main i386 libxinerama1 i386 2:1.1.4-2 [17.9 kB] Get: 88 http://deb.debian.org/debian buster/main i386 libfltk1.3 i386 1.3.4-9 [587 kB] Get: 89 http://deb.debian.org/debian buster/main i386 libfltk-cairo1.3 i386 1.3.4-9 [41.5 kB] Get: 90 http://deb.debian.org/debian buster/main i386 libfltk-forms1.3 i386 1.3.4-9 [48.4 kB] Get: 91 http://deb.debian.org/debian buster/main i386 libglvnd0 i386 1.1.0-1 [41.9 kB] Get: 92 http://deb.debian.org/debian buster/main i386 libglapi-mesa i386 18.3.6-2+deb10u1 [66.9 kB] Get: 93 http://deb.debian.org/debian buster/main i386 libx11-xcb1 i386 2:1.6.7-1 [190 kB] Get: 94 http://deb.debian.org/debian buster/main i386 libxcb-dri2-0 i386 1.13.1-2 [101 kB] Get: 95 http://deb.debian.org/debian buster/main i386 libxcb-dri3-0 i386 1.13.1-2 [101 kB] Get: 96 http://deb.debian.org/debian buster/main i386 libxcb-glx0 i386 1.13.1-2 [117 kB] Get: 97 http://deb.debian.org/debian buster/main i386 libxcb-present0 i386 1.13.1-2 [99.4 kB] Get: 98 http://deb.debian.org/debian buster/main i386 libxcb-sync1 i386 1.13.1-2 [103 kB] Get: 99 http://deb.debian.org/debian buster/main i386 libxdamage1 i386 1:1.1.4-3+b3 [15.0 kB] Get: 100 http://deb.debian.org/debian buster/main i386 libxshmfence1 i386 1.3-1 [8976 B] Get: 101 http://deb.debian.org/debian buster/main i386 libxxf86vm1 i386 1:1.1.4-1+b2 [21.7 kB] Get: 102 http://deb.debian.org/debian buster/main i386 libllvm7 i386 1:7.0.1-8 [13.0 MB] Get: 103 http://deb.debian.org/debian buster/main i386 libsensors-config all 1:3.5.0-3 [31.6 kB] Get: 104 http://deb.debian.org/debian buster/main i386 libsensors5 i386 1:3.5.0-3 [53.5 kB] Get: 105 http://deb.debian.org/debian buster/main i386 libgl1-mesa-dri i386 18.3.6-2+deb10u1 [7102 kB] Get: 106 http://deb.debian.org/debian buster/main i386 libglx-mesa0 i386 18.3.6-2+deb10u1 [187 kB] Get: 107 http://deb.debian.org/debian buster/main i386 libglx0 i386 1.1.0-1 [31.3 kB] Get: 108 http://deb.debian.org/debian buster/main i386 libgl1 i386 1.1.0-1 [83.1 kB] Get: 109 http://deb.debian.org/debian buster/main i386 libglu1-mesa i386 9.0.0-2.1+b3 [179 kB] Get: 110 http://deb.debian.org/debian buster/main i386 libfltk-gl1.3 i386 1.3.4-9 [73.5 kB] Get: 111 http://deb.debian.org/debian buster/main i386 libjpeg62-turbo i386 1:1.5.2-2+b1 [142 kB] Get: 112 http://deb.debian.org/debian buster/main i386 libfltk-images1.3 i386 1.3.4-9 [62.8 kB] Get: 113 http://deb.debian.org/debian buster/main i386 xorg-sgml-doctools all 1:1.11-1 [21.9 kB] Get: 114 http://deb.debian.org/debian buster/main i386 x11proto-dev all 2018.4-4 [251 kB] Get: 115 http://deb.debian.org/debian buster/main i386 x11proto-core-dev all 2018.4-4 [3128 B] Get: 116 http://deb.debian.org/debian buster/main i386 libxau-dev i386 1:1.0.8-1+b2 [23.6 kB] Get: 117 http://deb.debian.org/debian buster/main i386 libxdmcp-dev i386 1:1.1.2-3 [42.7 kB] Get: 118 http://deb.debian.org/debian buster/main i386 xtrans-dev all 1.3.5-1 [100 kB] Get: 119 http://deb.debian.org/debian buster/main i386 libpthread-stubs0-dev i386 0.4-1 [5340 B] Get: 120 http://deb.debian.org/debian buster/main i386 libxcb1-dev i386 1.13.1-2 [180 kB] Get: 121 http://deb.debian.org/debian buster/main i386 libx11-dev i386 2:1.6.7-1 [856 kB] Get: 122 http://deb.debian.org/debian buster/main i386 libfltk1.3-dev i386 1.3.4-9 [899 kB] Get: 123 http://deb.debian.org/debian buster/main i386 libgfortran5 i386 8.3.0-6 [549 kB] Get: 124 http://deb.debian.org/debian buster/main i386 libltdl7 i386 2.4.6-9 [392 kB] Get: 125 http://deb.debian.org/debian buster/main i386 libnuma1 i386 2.0.12-1 [27.7 kB] Get: 126 http://deb.debian.org/debian buster/main i386 libhwloc5 i386 1.11.12-3 [119 kB] Get: 127 http://deb.debian.org/debian buster/main i386 libnuma-dev i386 2.0.12-1 [40.9 kB] Get: 128 http://deb.debian.org/debian buster/main i386 libltdl-dev i386 2.4.6-9 [164 kB] Get: 129 http://deb.debian.org/debian buster/main i386 libhwloc-dev i386 1.11.12-3 [185 kB] Get: 130 http://deb.debian.org/debian buster/main i386 ocl-icd-libopencl1 i386 2.2.12-2 [37.2 kB] Get: 131 http://deb.debian.org/debian buster/main i386 libhwloc-plugins i386 1.11.12-3 [17.8 kB] Get: 132 http://deb.debian.org/debian buster/main i386 libnl-3-dev i386 3.4.0-1 [107 kB] Get: 133 http://deb.debian.org/debian buster/main i386 libnl-route-3-dev i386 3.4.0-1 [193 kB] Get: 134 http://deb.debian.org/debian buster/main i386 libibverbs-dev i386 22.1-1 [385 kB] Get: 135 http://deb.debian.org/debian buster/main i386 libpmix2 i386 3.1.2-3 [541 kB] Get: 136 http://deb.debian.org/debian buster/main i386 libopenmpi3 i386 3.1.3-11 [2236 kB] Get: 137 http://deb.debian.org/debian buster/main i386 openmpi-common all 3.1.3-11 [165 kB] Get: 138 http://deb.debian.org/debian buster/main i386 openmpi-bin i386 3.1.3-11 [200 kB] Get: 139 http://deb.debian.org/debian buster/main i386 libopenmpi-dev i386 3.1.3-11 [963 kB] Fetched 67.7 MB in 9s (7749 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19234 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../002-libuchardet0_0.0.6-3_i386.deb ... Unpacking libuchardet0:i386 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-3_i386.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../004-libpipeline1_1.5.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.8.5-2_i386.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../006-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../007-libmagic-mgc_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic-mgc (1:5.35-4+deb10u1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../008-libmagic1_1%3a5.35-4+deb10u1_i386.deb ... Unpacking libmagic1:i386 (1:5.35-4+deb10u1) ... Selecting previously unselected package file. Preparing to unpack .../009-file_1%3a5.35-4+deb10u1_i386.deb ... Unpacking file (1:5.35-4+deb10u1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../010-gettext-base_0.19.8.1-9_i386.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libedit2:i386. Preparing to unpack .../011-libedit2_3.1-20181209-1_i386.deb ... Unpacking libedit2:i386 (3.1-20181209-1) ... Selecting previously unselected package libkeyutils1:i386. Preparing to unpack .../012-libkeyutils1_1.6-6_i386.deb ... Unpacking libkeyutils1:i386 (1.6-6) ... Selecting previously unselected package libkrb5support0:i386. Preparing to unpack .../013-libkrb5support0_1.17-3_i386.deb ... Unpacking libkrb5support0:i386 (1.17-3) ... Selecting previously unselected package libk5crypto3:i386. Preparing to unpack .../014-libk5crypto3_1.17-3_i386.deb ... Unpacking libk5crypto3:i386 (1.17-3) ... Selecting previously unselected package libssl1.1:i386. Preparing to unpack .../015-libssl1.1_1.1.1d-0+deb10u3_i386.deb ... Unpacking libssl1.1:i386 (1.1.1d-0+deb10u3) ... Selecting previously unselected package libkrb5-3:i386. Preparing to unpack .../016-libkrb5-3_1.17-3_i386.deb ... Unpacking libkrb5-3:i386 (1.17-3) ... Selecting previously unselected package libgssapi-krb5-2:i386. Preparing to unpack .../017-libgssapi-krb5-2_1.17-3_i386.deb ... Unpacking libgssapi-krb5-2:i386 (1.17-3) ... Selecting previously unselected package openssh-client. Preparing to unpack .../018-openssh-client_1%3a7.9p1-10+deb10u2_i386.deb ... Unpacking openssh-client (1:7.9p1-10+deb10u2) ... Selecting previously unselected package ucf. Preparing to unpack .../019-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../020-libsigsegv2_2.12-2_i386.deb ... Unpacking libsigsegv2:i386 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../021-m4_1.4.18-2_i386.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../022-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../023-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../024-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../025-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libtool. Preparing to unpack .../026-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../027-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../028-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 .../029-libfile-stripnondeterminism-perl_1.1.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../030-dh-strip-nondeterminism_1.1.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../031-libelf1_0.176-1.1_i386.deb ... Unpacking libelf1:i386 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../032-dwz_0.12-3_i386.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../033-libglib2.0-0_2.58.3-2+deb10u2_i386.deb ... Unpacking libglib2.0-0:i386 (2.58.3-2+deb10u2) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../034-libicu63_63.1-6+deb10u1_i386.deb ... Unpacking libicu63:i386 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../035-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libcroco3:i386. Preparing to unpack .../036-libcroco3_0.6.12-3_i386.deb ... Unpacking libcroco3:i386 (0.6.12-3) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../037-libncurses6_6.1+20181013-2+deb10u2_i386.deb ... Unpacking libncurses6:i386 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package gettext. Preparing to unpack .../038-gettext_0.19.8.1-9_i386.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../039-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../040-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../041-debhelper_12.1.1_all.deb ... Unpacking debhelper (12.1.1) ... Selecting previously unselected package dh-exec. Preparing to unpack .../042-dh-exec_0.23.1_i386.deb ... Unpacking dh-exec (0.23.1) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../043-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../044-fontconfig-config_2.13.1-2_all.deb ... Unpacking fontconfig-config (2.13.1-2) ... Selecting previously unselected package libnl-3-200:i386. Preparing to unpack .../045-libnl-3-200_3.4.0-1_i386.deb ... 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Unpacking libopenmpi-dev:i386 (3.1.3-11) ... Setting up libexpat1:i386 (2.2.6-2+deb10u1) ... Setting up libpipeline1:i386 (1.5.1-2) ... Setting up libpixman-1-0:i386 (0.36.0-1) ... Setting up libx11-xcb1:i386 (2:1.6.7-1) ... Setting up libpciaccess0:i386 (0.14-1) ... Setting up libxau6:i386 (1:1.0.8-1+b2) ... Setting up libkeyutils1:i386 (1.6-6) ... Setting up libfftw3-single3:i386 (3.3.8-2) ... Setting up libmagic-mgc (1:5.35-4+deb10u1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:i386 (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up libglvnd0:i386 (1.1.0-1) ... Setting up libssl1.1:i386 (1.1.1d-0+deb10u3) ... Setting up libsensors-config (1:3.5.0-3) ... Setting up libmagic1:i386 (1:5.35-4+deb10u1) ... Setting up libfftw3-long3:i386 (3.3.8-2) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libpthread-stubs0-dev:i386 (0.4-1) ... Setting up libicu63:i386 (63.1-6+deb10u1) ... Setting up libkrb5support0:i386 (1.17-3) ... Setting up xtrans-dev (1.3.5-1) ... Setting up autotools-dev (20180224.1) ... Setting up libjpeg62-turbo:i386 (1:1.5.2-2+b1) ... Setting up libx11-data (2:1.6.7-1) ... Setting up libncurses6:i386 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:i386 (2.12-2) ... Setting up libfftw3-quad3:i386 (3.3.8-2) ... Setting up libpng16-16:i386 (1.6.36-6) ... Setting up autopoint (0.19.8.1-9) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libsensors5:i386 (1:3.5.0-3) ... Setting up libk5crypto3:i386 (1.17-3) ... Setting up libltdl7:i386 (2.4.6-9) ... Setting up libfftw3-double3:i386 (3.3.8-2) ... Setting up libglapi-mesa:i386 (18.3.6-2+deb10u1) ... Setting up libevent-core-2.1-6:i386 (2.1.8-stable-4) ... Setting up libgfortran5:i386 (8.3.0-6) ... Setting up libevent-2.1-6:i386 (2.1.8-stable-4) ... Setting up libnuma1:i386 (2.0.12-1) ... Setting up sensible-utils (0.0.12) ... Setting up ocl-icd-libopencl1:i386 (2.2.12-2) ... Setting up libxshmfence1:i386 (1.3-1) ... Setting up libuchardet0:i386 (0.0.6-3) ... Setting up libnl-3-200:i386 (3.4.0-1) ... Setting up openmpi-common (3.1.3-11) ... Setting up xorg-sgml-doctools (1:1.11-1) ... Setting up libkrb5-3:i386 (1.17-3) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/i386-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libbsd0:i386 (0.9.1-2) ... Setting up libdrm-common (2.4.97-1) ... Setting up libelf1:i386 (0.176-1.1) ... Setting up libxml2:i386 (2.9.4+dfsg1-7+b3) ... Setting up x11proto-dev (2018.4-4) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libevent-pthreads-2.1-6:i386 (2.1.8-stable-4) ... Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up libxcb1:i386 (1.13.1-2) ... Setting up libxau-dev:i386 (1:1.0.8-1+b2) ... Setting up libtool (2.4.6-9) ... Setting up libxcb-render0:i386 (1.13.1-2) ... Setting up libfftw3-bin (3.3.8-2) ... Setting up libhwloc5:i386 (1.11.12-3) ... Setting up libxcb-glx0:i386 (1.13.1-2) ... Setting up libedit2:i386 (3.1-20181209-1) ... Setting up m4 (1.4.18-2) ... Setting up libxcb-shm0:i386 (1.13.1-2) ... Setting up libhwloc-plugins:i386 (1.11.12-3) ... Setting up libnuma-dev:i386 (2.0.12-1) ... Setting up libnl-route-3-200:i386 (3.4.0-1) ... Setting up libxcb-present0:i386 (1.13.1-2) ... Setting up libxdmcp-dev:i386 (1:1.1.2-3) ... Setting up libfreetype6:i386 (2.9.1-3+deb10u1) ... Setting up libxcb-sync1:i386 (1.13.1-2) ... Setting up x11proto-core-dev (2018.4-4) ... 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 libgssapi-krb5-2:i386 (1.17-3) ... Setting up libcroco3:i386 (0.6.12-3) ... Setting up ucf (3.0038+nmu1) ... Setting up autoconf (2.69-11) ... Setting up libxcb-dri2-0:i386 (1.13.1-2) ... Setting up libdrm2:i386 (2.4.97-1) ... Setting up dwz (0.12-3) ... Setting up libnl-3-dev:i386 (3.4.0-1) ... Setting up groff-base (1.22.4-3) ... Setting up libllvm7:i386 (1:7.0.1-8) ... Setting up libx11-6:i386 (2:1.6.7-1) ... Setting up libfftw3-dev:i386 (3.3.8-2) ... Setting up libdrm-amdgpu1:i386 (2.4.97-1) ... 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 libxcb-dri3-0:i386 (1.13.1-2) ... Setting up libibverbs1:i386 (22.1-1) ... Setting up libdrm-nouveau2:i386 (2.4.97-1) ... Setting up gettext (0.19.8.1-9) ... Setting up libxcb1-dev:i386 (1.13.1-2) ... Setting up libxrender1:i386 (1:0.9.10-1) ... Setting up libpmix2:i386 (3.1.2-3) ... Setting up ibverbs-providers:i386 (22.1-1) ... Setting up libdrm-radeon1:i386 (2.4.97-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up openssh-client (1:7.9p1-10+deb10u2) ... Setting up libdrm-intel1:i386 (2.4.97-1) ... Setting up libgl1-mesa-dri:i386 (18.3.6-2+deb10u1) ... Setting up libx11-dev:i386 (2:1.6.7-1) ... Setting up libxext6:i386 (2:1.3.3-1+b2) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxxf86vm1:i386 (1:1.1.4-1+b2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libnl-route-3-dev:i386 (3.4.0-1) ... Setting up libltdl-dev:i386 (2.4.6-9) ... Setting up libxfixes3:i386 (1:5.0.3-1) ... Setting up libxinerama1:i386 (2:1.1.4-2) ... Setting up libhwloc-dev:i386 (1.11.12-3) ... Setting up libfontconfig1:i386 (2.13.1-2) ... Setting up librdmacm1:i386 (22.1-1) ... Setting up libxft2:i386 (2.3.2-2) ... Setting up libxdamage1:i386 (1:1.1.4-3+b3) ... Setting up po-debconf (1.0.21) ... Setting up libxcursor1:i386 (1:1.1.15-2) ... Setting up libibverbs-dev:i386 (22.1-1) ... Setting up libcairo2:i386 (1.16.0-4) ... Setting up libfabric1 (1.6.2-3) ... Setting up libglx-mesa0:i386 (18.3.6-2+deb10u1) ... Setting up libglx0:i386 (1.1.0-1) ... Setting up libopenmpi3:i386 (3.1.3-11) ... Setting up libfltk1.3:i386 (1.3.4-9) ... Setting up libfltk-cairo1.3:i386 (1.3.4-9) ... Setting up libfltk-images1.3:i386 (1.3.4-9) ... Setting up libfltk-forms1.3:i386 (1.3.4-9) ... Setting up libgl1:i386 (1.1.0-1) ... Setting up libglu1-mesa:i386 (9.0.0-2.1+b3) ... Setting up openmpi-bin (3.1.3-11) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libfltk-gl1.3:i386 (1.3.4-9) ... Setting up libopenmpi-dev:i386 (3.1.3-11) ... update-alternatives: using /usr/lib/i386-linux-gnu/openmpi/include to provide /usr/include/i386-linux-gnu/mpi (mpi-i386-linux-gnu) in auto mode Setting up libfltk1.3-dev (1.3.4-9) ... Setting up dh-autoreconf (19) ... Setting up debhelper (12.1.1) ... Setting up dh-exec (0.23.1) ... 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/relion-1.4+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package relion dpkg-buildpackage: info: source version 1.4+dfsg-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 dpkg-source: info: using options from relion-1.4+dfsg/debian/source/options: --compression=xz fakeroot debian/rules clean Relion API Version = 1.4 Relion most recent (current) lib interface = 1 dh clean dh_clean debian/rules build Relion API Version = 1.4 Relion most recent (current) lib interface = 1 dh build dh_update_autotools_config dh_autoreconf libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac, libtoolize: and rerunning libtoolize and aclocal. libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am. configure.ac:16: installing './compile' configure.ac:4: installing './missing' /usr/share/automake-1.16/am/ltlibrary.am: warning: 'librelion-@RELION_API_VERSION@.la': linking libtool libraries using a non-POSIX /usr/share/automake-1.16/am/ltlibrary.am: archiver requires 'AM_PROG_AR' in 'configure.ac' Makefile.am:44: while processing Libtool library 'librelion-@RELION_API_VERSION@.la' Makefile.am: installing './depcomp' debian/rules override_dh_auto_build make[1]: Entering directory '/build/relion-1.4+dfsg' Relion API Version = 1.4 Relion most recent (current) lib interface = 1 # We need to build 4 different versions for the 4 different binary # packages. This is necessary because unfortunately the binaries work # only with the exact same librelion they were built with. # First no MPI, no GUI (for relion-bin) ... dh_auto_configure -- --libdir=\${prefix}/lib/i386-linux-gnu --disable-gui ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --libdir=\${prefix}/lib/i386-linux-gnu --disable-gui configure: WARNING: unrecognized options: --disable-maintainer-mode 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 build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu 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 i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu 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 ar... ar 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... yes 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 for fftw3.h... yes checking for main in -lfftw3... yes checking for fftw_plan_with_nthreads in -lfftw3_threads... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating relion-1.4.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode make -j10; make install prefix=/build/relion-1.4+dfsg/debian/tmp/simple/usr make[2]: Entering directory '/build/relion-1.4+dfsg' make all-am make[3]: Entering directory '/build/relion-1.4+dfsg' g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/project.o src/apps/project.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/reconstruct.o src/apps/reconstruct.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine.o src/apps/refine.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess.o src/apps/preprocess.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/postprocess.o src/apps/postprocess.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick.o src/apps/autopick.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish.o src/apps/particle_polish.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort.o src/apps/particle_sort.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind.o src/apps/run_ctffind.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/star_compare.o src/apps/star_compare.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/find_tiltpairs.o src/apps/find_tiltpairs.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/tiltpair_plot.o src/apps/tiltpair_plot.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/mask_create.o src/apps/mask_create.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/stack_create.o src/apps/stack_create.cpp g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/image_handler.o src/apps/image_handler.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/args.lo src/args.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -fPIC -DPIC -o src/.libs/args.o src/args.cpp: In member function 'IOParser& IOParser::operator=(const IOParser&)': src/args.cpp:104:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/assembly.lo src/assembly.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -fPIC -DPIC -o src/.libs/assembly.o src/assembly.cpp: In member function 'void Assembly::writePDB(std::__cxx11::string)': src/assembly.cpp:355:19: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] fprintf(file, "ATOM %5d %-4s %3s %1c%4d %8.3f%8.3f%8.3f%6.2f%6.2f %4s\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atomnum, molecules[imol].residues[ires].atoms[iatom].name.c_str(), molecules[imol].residues[ires].name.c_str(), ~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker.lo src/autopicker.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -fPIC -DPIC -o src/.libs/autopicker.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -o src/args.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from src/apps/mask_create.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/backprojector.lo src/backprojector.cpp In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from src/apps/project.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -fPIC -DPIC -o src/.libs/backprojector.o In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from src/apps/stack_create.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from ./src/backprojector.h:31, from src/apps/reconstruct.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from src/apps/image_handler.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/complex.lo src/complex.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -fPIC -DPIC -o src/.libs/complex.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -o src/complex.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctf.lo src/ctf.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -fPIC -DPIC -o src/.libs/ctf.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner.lo src/ctffind_runner.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -fPIC -DPIC -o src/.libs/ctffind_runner.o src/ctffind_runner.cpp: In member function 'void CtffindRunner::executeCtffind(FileName)': src/ctffind_runner.cpp:237:9: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system ( fn_cmnd.c_str() ); ~~~~~~~^~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/error.lo src/error.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -fPIC -DPIC -o src/.libs/error.o In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/autopicker.h:10, from src/autopicker.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -o src/error.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/euler.lo src/euler.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -fPIC -DPIC -o src/.libs/euler.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -o src/backprojector.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -o src/assembly.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/exp_model.lo src/exp_model.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/fftw.lo src/fftw.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/filename.lo src/filename.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -fPIC -DPIC -o src/.libs/exp_model.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -fPIC -DPIC -o src/.libs/fftw.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -fPIC -DPIC -o src/.libs/filename.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -o src/ctf.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -o src/euler.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/funcs.lo src/funcs.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -fPIC -DPIC -o src/.libs/funcs.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -o src/filename.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from ./src/ctffind_runner.h:26, from src/ctffind_runner.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/healpix_sampling.lo src/healpix_sampling.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -fPIC -DPIC -o src/.libs/healpix_sampling.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/image.lo src/image.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -fPIC -DPIC -o src/.libs/image.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -o src/autopicker.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -o src/funcs.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mask.lo src/mask.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix1d.lo src/matrix1d.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -fPIC -DPIC -o src/.libs/mask.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix2d.lo src/matrix2d.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -fPIC -DPIC -o src/.libs/matrix1d.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -fPIC -DPIC -o src/.libs/matrix2d.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -o src/fftw.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/istream:38, from /usr/include/c++/8/fstream:38, from ./src/exp_model.h:22, from src/exp_model.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -o src/matrix2d.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -o src/ctffind_runner.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -o src/matrix1d.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/memory.lo src/memory.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/memory.cpp -fPIC -DPIC -o src/.libs/memory.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -o src/image.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 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-ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_label.lo src/metadata_label.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -fPIC -DPIC -o src/.libs/metadata_label.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_table.lo src/metadata_table.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -fPIC -DPIC -o src/.libs/metadata_table.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_model.lo src/ml_model.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -fPIC -DPIC -o src/.libs/ml_model.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_container.cpp -o src/metadata_container.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_optimiser.lo src/ml_optimiser.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -fPIC -DPIC -o src/.libs/ml_optimiser.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -o src/healpix_sampling.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -o src/exp_model.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/multidim_array.lo src/multidim_array.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -fPIC -DPIC -o src/.libs/multidim_array.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -o src/metadata_table.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/numerical_recipes.lo src/numerical_recipes.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -o src/multidim_array.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -fPIC -DPIC -o src/.libs/numerical_recipes.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/parallel.lo src/parallel.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -fPIC -DPIC -o src/.libs/parallel.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -o src/numerical_recipes.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_polisher.lo src/particle_polisher.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -o src/parallel.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -fPIC -DPIC -o src/.libs/particle_polisher.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter.lo src/particle_sorter.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/postprocessing.lo src/postprocessing.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -fPIC -DPIC -o src/.libs/particle_sorter.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -fPIC -DPIC -o src/.libs/postprocessing.o In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from ./src/ml_model.h:23, from src/ml_model.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing.lo src/preprocessing.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -fPIC -DPIC -o src/.libs/preprocessing.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/projector.lo src/projector.cpp src/preprocessing.cpp: In member function 'void Preprocessing::runExtractParticles()': src/preprocessing.cpp:287:10: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system(("mkdir -p " + fn_dir).c_str()); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -fPIC -DPIC -o src/.libs/projector.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/strings.lo src/strings.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -fPIC -DPIC -o src/.libs/strings.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/symmetries.lo src/symmetries.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -fPIC -DPIC -o src/.libs/symmetries.o In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/particle_sorter.h:24, from src/particle_sorter.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -o src/strings.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/postprocessing.h:24, from src/postprocessing.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -o src/ml_model.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/particle_polisher.h:23, from src/particle_polisher.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from ./src/preprocessing.h:26, from src/preprocessing.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/tabfuncs.lo src/tabfuncs.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -fPIC -DPIC -o src/.libs/tabfuncs.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -o src/projector.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -o src/tabfuncs.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -o src/particle_sorter.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/time.lo src/time.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -fPIC -DPIC -o src/.libs/time.o src/time.cpp: In member function 'int Timer::toc(int)': src/time.cpp:223:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -o src/symmetries.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -o src/time.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from ./src/ml_model.h:23, from ./src/ml_optimiser.h:25, from src/ml_optimiser.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -o src/postprocessing.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/transformations.lo src/transformations.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -o src/preprocessing.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -fPIC -DPIC -o src/.libs/transformations.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/cxxutils.lo src/Healpix_2.15a/cxxutils.cc libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/cxxutils.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -o src/transformations.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 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-L/usr/lib/gcc/i686-linux-gnu/8/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/8/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/8/crtendS.o /usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,librelion-1.4.so.1 -o .libs/librelion-1.4.so.1.0.4 libtool: link: (cd ".libs" && rm -f "librelion-1.4.so.1" && ln -s "librelion-1.4.so.1.0.4" "librelion-1.4.so.1") libtool: link: (cd ".libs" && rm -f "librelion-1.4.so" && ln -s "librelion-1.4.so.1.0.4" "librelion-1.4.so") libtool: link: ar cru .libs/librelion-1.4.a src/args.o src/assembly.o src/autopicker.o src/backprojector.o src/complex.o src/ctf.o src/ctffind_runner.o src/error.o src/euler.o src/exp_model.o src/fftw.o src/filename.o src/funcs.o src/healpix_sampling.o src/image.o src/mask.o src/matrix1d.o src/matrix2d.o src/memory.o src/metadata_container.o src/metadata_label.o src/metadata_table.o src/ml_model.o src/ml_optimiser.o src/multidim_array.o src/numerical_recipes.o src/parallel.o src/particle_polisher.o src/particle_sorter.o src/postprocessing.o src/preprocessing.o src/projector.o src/strings.o src/symmetries.o src/tabfuncs.o src/time.o src/transformations.o src/Healpix_2.15a/cxxutils.o src/Healpix_2.15a/healpix_base.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/librelion-1.4.a libtool: link: ( cd ".libs" && rm -f "librelion-1.4.la" && ln -s "../librelion-1.4.la" "librelion-1.4.la" ) /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o project src/apps/project.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o refine src/apps/refine.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o reconstruct src/apps/reconstruct.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o preprocess src/apps/preprocess.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o postprocess src/apps/postprocess.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o autopick src/apps/autopick.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o particle_polish src/apps/particle_polish.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o particle_sort src/apps/particle_sort.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o run_ctffind src/apps/run_ctffind.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o star_compare src/apps/star_compare.o librelion-1.4.la -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/project src/apps/project.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/postprocess src/apps/postprocess.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/particle_polish src/apps/particle_polish.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. 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-lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/find_tiltpairs src/apps/find_tiltpairs.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/mask_create src/apps/mask_create.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/tiltpair_plot src/apps/tiltpair_plot.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/stack_create src/apps/stack_create.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/image_handler src/apps/image_handler.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Entering directory '/build/relion-1.4+dfsg' make[3]: Entering directory '/build/relion-1.4+dfsg' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c librelion-1.4.la '/build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/librelion-1.4.so.1.0.4 /build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so.1 || { rm -f librelion-1.4.so.1 && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so.1; }; }) libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so || { rm -f librelion-1.4.so && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so; }; }) libtool: install: /usr/bin/install -c .libs/librelion-1.4.lai /build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu/librelion-1.4.la libtool: install: /usr/bin/install -c .libs/librelion-1.4.a /build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: chmod 644 /build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: ranlib /build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: warning: remember to run 'libtool --finish /usr/lib/i386-linux-gnu' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin' /bin/bash ./libtool --mode=install /usr/bin/install -c project '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_project' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/project /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_project /bin/bash ./libtool --mode=install /usr/bin/install -c reconstruct '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_reconstruct' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/reconstruct /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_reconstruct /bin/bash ./libtool --mode=install /usr/bin/install -c refine '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_refine' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/refine /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_refine /bin/bash ./libtool --mode=install /usr/bin/install -c preprocess '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_preprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/preprocess /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_preprocess /bin/bash ./libtool --mode=install /usr/bin/install -c postprocess '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_postprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/postprocess /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_postprocess /bin/bash ./libtool --mode=install /usr/bin/install -c autopick '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_autopick' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/autopick /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_autopick /bin/bash ./libtool --mode=install /usr/bin/install -c particle_polish '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_particle_polish' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_polish /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_particle_polish /bin/bash ./libtool --mode=install /usr/bin/install -c particle_sort '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_particle_sort' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_sort /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_particle_sort /bin/bash ./libtool --mode=install /usr/bin/install -c run_ctffind '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_run_ctffind' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/run_ctffind /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_run_ctffind /bin/bash ./libtool --mode=install /usr/bin/install -c star_compare '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_compare' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/star_compare /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_compare /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_tiltpair_plot /bin/bash ./libtool --mode=install /usr/bin/install -c mask_create '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_mask_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/mask_create /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_mask_create /bin/bash ./libtool --mode=install /usr/bin/install -c stack_create '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_stack_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/stack_create /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_stack_create /bin/bash ./libtool --mode=install /usr/bin/install -c image_handler '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_image_handler' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/image_handler /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_image_handler /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_tiltpair_plot /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin' /usr/bin/install -c scripts/star_datablock_ctfdat '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_datablock_ctfdat' /usr/bin/install -c scripts/star_datablock_stack '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_datablock_stack' /usr/bin/install -c scripts/star_datablock_singlefiles '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_datablock_singlefiles' /usr/bin/install -c scripts/star_loopheader '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_loopheader' /usr/bin/install -c scripts/star_plottable '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_plottable' /usr/bin/install -c scripts/star_printtable '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_star_printtable' /usr/bin/install -c scripts/qsub.csh '/build/relion-1.4+dfsg/debian/tmp/simple/usr/bin/./relion_qsub.csh' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/args.h src/assembly.h src/autopicker.h src/backprojector.h src/complex.h src/ctf.h src/ctffind_runner.h src/displayer.h src/error.h src/euler.h src/exp_model.h src/fftw.h src/filename.h src/funcs.h src/gcc_version.h src/gui_entries.h src/gui_jobwindow.h src/gui_mainwindow.h src/healpix_sampling.h src/image.h src/macros.h src/mask.h src/matrix1d.h src/matrix2d.h src/memory.h src/metadata_container.h src/metadata_label.h src/metadata_table.h src/ml_model.h src/ml_optimiser.h src/multidim_array.h src/numerical_recipes.h src/parallel.h src/particle_polisher.h src/particle_sorter.h src/postprocessing.h src/preprocessing.h src/projector.h src/rwIMAGIC.h src/rwMRC.h '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/rwSPIDER.h src/strings.h src/symmetries.h src/tabfuncs.h src/time.h src/transformations.h '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 src/Healpix_2.15a/arr.h src/Healpix_2.15a/cxxutils.h src/Healpix_2.15a/datatypes.h src/Healpix_2.15a/geom_utils.h src/Healpix_2.15a/lsconstants.h src/Healpix_2.15a/message_error.h src/Healpix_2.15a/openmp_support.h src/Healpix_2.15a/pointing.h src/Healpix_2.15a/vec3.h src/Healpix_2.15a/healpix_base.h '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 relion.h '/build/relion-1.4+dfsg/debian/tmp/simple/usr/include/relion-1.4/.' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 relion-1.4.pc '/build/relion-1.4+dfsg/debian/tmp/simple/usr/lib/i386-linux-gnu/pkgconfig' make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make clean make[2]: Entering directory '/build/relion-1.4+dfsg' rm -f project reconstruct refine preprocess postprocess autopick particle_polish particle_sort run_ctffind star_compare find_tiltpairs tiltpair_plot mask_create stack_create image_handler find_tiltpairs tiltpair_plot test -z "librelion-1.4.la" || rm -f librelion-1.4.la rm -f ./so_locations rm -rf .libs _libs rm -rf src/.libs src/_libs rm -rf src/Healpix_2.15a/.libs src/Healpix_2.15a/_libs rm -f *.o rm -f src/*.o rm -f src/*.lo rm -f src/Healpix_2.15a/*.o rm -f src/Healpix_2.15a/*.lo rm -f src/apps/*.o rm -f *.lo make[2]: Leaving directory '/build/relion-1.4+dfsg' # ... then add MPI (for relion-bin+mpi) ... MPICXX=mpicxx.openmpi dh_auto_configure -- --libdir=\${prefix}/lib/i386-linux-gnu --enable-mpi --disable-gui ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --libdir=\${prefix}/lib/i386-linux-gnu --enable-mpi --disable-gui configure: WARNING: unrecognized options: --disable-maintainer-mode 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 build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu 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 i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu 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 ar... ar 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... yes 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 for mpic++... mpicxx.openmpi checking for fftw3.h... yes checking for main in -lfftw3... yes checking for fftw_plan_with_nthreads in -lfftw3_threads... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating relion-1.4.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode make -j10; make install prefix=/build/relion-1.4+dfsg/debian/tmp/mpi/usr make[2]: Entering directory '/build/relion-1.4+dfsg' make all-am make[3]: Entering directory '/build/relion-1.4+dfsg' mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/project.o src/apps/project.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/args.lo src/args.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/assembly.lo src/assembly.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker.lo src/autopicker.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/backprojector.lo src/backprojector.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/complex.lo src/complex.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctf.lo src/ctf.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner.lo src/ctffind_runner.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/error.lo src/error.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/euler.lo src/euler.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -fPIC -DPIC -o src/.libs/error.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -fPIC -DPIC -o src/.libs/assembly.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -fPIC -DPIC -o src/.libs/ctffind_runner.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -fPIC -DPIC -o src/.libs/backprojector.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -fPIC -DPIC -o src/.libs/args.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -fPIC -DPIC -o src/.libs/autopicker.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -fPIC -DPIC -o src/.libs/complex.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -fPIC -DPIC -o src/.libs/ctf.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -fPIC -DPIC -o src/.libs/euler.o src/args.cpp: In member function 'IOParser& IOParser::operator=(const IOParser&)': src/args.cpp:104:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -o src/complex.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -o src/error.o >/dev/null 2>&1 src/assembly.cpp: In member function 'void Assembly::writePDB(std::__cxx11::string)': src/assembly.cpp:355:19: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] fprintf(file, "ATOM %5d %-4s %3s %1c%4d %8.3f%8.3f%8.3f%6.2f%6.2f %4s\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atomnum, molecules[imol].residues[ires].atoms[iatom].name.c_str(), molecules[imol].residues[ires].name.c_str(), ~~~~~~~ src/ctffind_runner.cpp: In member function 'void CtffindRunner::executeCtffind(FileName)': src/ctffind_runner.cpp:237:9: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system ( fn_cmnd.c_str() ); ~~~~~~~^~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/exp_model.lo src/exp_model.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/fftw.lo src/fftw.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -fPIC -DPIC -o src/.libs/exp_model.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -fPIC -DPIC -o src/.libs/fftw.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -o src/euler.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -o src/ctf.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -o src/args.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/filename.lo src/filename.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -fPIC -DPIC -o src/.libs/filename.o In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from ./src/ctffind_runner.h:26, from src/ctffind_runner.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/funcs.lo src/funcs.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -fPIC -DPIC -o src/.libs/funcs.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/healpix_sampling.lo src/healpix_sampling.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -fPIC -DPIC -o src/.libs/healpix_sampling.o In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/autopicker.h:10, from src/autopicker.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from src/apps/project.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -o src/backprojector.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -o src/funcs.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -o src/assembly.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/istream:38, from /usr/include/c++/8/fstream:38, from ./src/exp_model.h:22, from src/exp_model.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -o src/filename.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -o src/fftw.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/image.lo src/image.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -fPIC -DPIC -o src/.libs/image.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -o src/ctffind_runner.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mask.lo src/mask.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -fPIC -DPIC -o src/.libs/mask.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -o src/autopicker.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix1d.lo src/matrix1d.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -fPIC -DPIC -o src/.libs/matrix1d.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -o src/exp_model.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -o src/mask.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -o src/image.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -o src/healpix_sampling.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -o src/matrix1d.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix2d.lo src/matrix2d.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -fPIC -DPIC -o src/.libs/matrix2d.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -o src/matrix2d.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/memory.lo src/memory.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/memory.cpp -fPIC -DPIC -o src/.libs/memory.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_container.lo src/metadata_container.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_label.lo src/metadata_label.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_container.cpp -fPIC -DPIC -o src/.libs/metadata_container.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -fPIC -DPIC -o src/.libs/metadata_label.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/memory.cpp -o src/memory.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_table.lo src/metadata_table.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_model.lo src/ml_model.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -fPIC -DPIC -o src/.libs/metadata_table.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -fPIC -DPIC -o src/.libs/ml_model.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_optimiser.lo src/ml_optimiser.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/multidim_array.lo src/multidim_array.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -fPIC -DPIC -o src/.libs/ml_optimiser.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -fPIC -DPIC -o src/.libs/multidim_array.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -o src/multidim_array.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_container.cpp -o src/metadata_container.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/numerical_recipes.lo src/numerical_recipes.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -fPIC -DPIC -o src/.libs/numerical_recipes.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/parallel.lo src/parallel.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -fPIC -DPIC -o src/.libs/parallel.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -o src/numerical_recipes.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_polisher.lo src/particle_polisher.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -o src/parallel.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -fPIC -DPIC -o src/.libs/particle_polisher.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -o src/metadata_table.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter.lo src/particle_sorter.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -fPIC -DPIC -o src/.libs/particle_sorter.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/postprocessing.lo src/postprocessing.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing.lo src/preprocessing.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -fPIC -DPIC -o src/.libs/postprocessing.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -fPIC -DPIC -o src/.libs/preprocessing.o src/preprocessing.cpp: In member function 'void Preprocessing::runExtractParticles()': src/preprocessing.cpp:287:10: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system(("mkdir -p " + fn_dir).c_str()); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from ./src/ml_model.h:23, from src/ml_model.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/projector.lo src/projector.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -fPIC -DPIC -o src/.libs/projector.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/strings.lo src/strings.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -fPIC -DPIC -o src/.libs/strings.o In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/particle_sorter.h:24, from src/particle_sorter.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/symmetries.lo src/symmetries.cpp In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/postprocessing.h:24, from src/postprocessing.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -fPIC -DPIC -o src/.libs/symmetries.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -o src/strings.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from ./src/particle_polisher.h:23, from src/particle_polisher.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from ./src/preprocessing.h:26, from src/preprocessing.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/tabfuncs.lo src/tabfuncs.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -o src/ml_model.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -fPIC -DPIC -o src/.libs/tabfuncs.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -o src/particle_sorter.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -o src/projector.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -o src/tabfuncs.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -o src/postprocessing.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/time.lo src/time.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -fPIC -DPIC -o src/.libs/time.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -o src/preprocessing.o >/dev/null 2>&1 src/time.cpp: In member function 'int Timer::toc(int)': src/time.cpp:223:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -o src/symmetries.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -o src/time.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from ./src/ml_model.h:23, from ./src/ml_optimiser.h:25, from src/ml_optimiser.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/transformations.lo src/transformations.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -fPIC -DPIC -o src/.libs/transformations.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/cxxutils.lo src/Healpix_2.15a/cxxutils.cc libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/cxxutils.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -o src/particle_polisher.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/healpix_base.lo src/Healpix_2.15a/healpix_base.cc libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -o src/transformations.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/healpix_base.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mpi.lo src/mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -o src/Healpix_2.15a/healpix_base.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mpi.cpp -fPIC -DPIC -o src/.libs/mpi.o src/mpi.cpp: In constructor 'MpiNode::MpiNode(int&, char**)': src/mpi.cpp:56:57: warning: 'int MPI_Errhandler_set(MPI_Comm, MPI_Errhandler)' is deprecated: MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0 [-Wdeprecated-declarations] MPI_Errhandler_set(MPI_COMM_WORLD, MPI_ERRORS_RETURN); ^ In file included from ./src/mpi.h:47, from src/mpi.cpp:46: /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:1338:20: note: declared here OMPI_DECLSPEC int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) ^~~~~~~~~~~~~~~~~~ src/mpi.cpp:56:57: warning: 'int MPI_Errhandler_set(MPI_Comm, MPI_Errhandler)' is deprecated: MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0 [-Wdeprecated-declarations] MPI_Errhandler_set(MPI_COMM_WORLD, MPI_ERRORS_RETURN); ^ In file included from ./src/mpi.h:47, from src/mpi.cpp:46: /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:1338:20: note: declared here OMPI_DECLSPEC int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) ^~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker_mpi.lo src/autopicker_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker_mpi.cpp -fPIC -DPIC -o src/.libs/autopicker_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -o src/Healpix_2.15a/cxxutils.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner_mpi.lo src/ctffind_runner_mpi.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_polisher_mpi.lo src/particle_polisher_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner_mpi.cpp -fPIC -DPIC -o src/.libs/ctffind_runner_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mpi.cpp -o src/mpi.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher_mpi.cpp -fPIC -DPIC -o src/.libs/particle_polisher_mpi.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter_mpi.lo src/particle_sorter_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter_mpi.cpp -fPIC -DPIC -o src/.libs/particle_sorter_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker_mpi.cpp -o src/autopicker_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing_mpi.lo src/preprocessing_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing_mpi.cpp -fPIC -DPIC -o src/.libs/preprocessing_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner_mpi.cpp -o src/ctffind_runner_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_optimiser_mpi.lo src/ml_optimiser_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser_mpi.cpp -fPIC -DPIC -o src/.libs/ml_optimiser_mpi.o src/preprocessing_mpi.cpp: In member function 'void PreprocessingMpi::runExtractParticles()': src/preprocessing_mpi.cpp:58:9: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system("mkdir -p Particles"); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ src/preprocessing_mpi.cpp:68:10: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] system(("mkdir -p " + fn_dir).c_str()); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/reconstruct.o src/apps/reconstruct.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine.o src/apps/refine.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter_mpi.cpp -o src/particle_sorter_mpi.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing_mpi.cpp -o src/preprocessing_mpi.o >/dev/null 2>&1 In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/stdexcept:39, from /usr/include/c++/8/array:39, from /usr/include/c++/8/tuple:39, from /usr/include/c++/8/bits/stl_map.h:63, from /usr/include/c++/8/map:61, from /usr/lib/i386-linux-gnu/openmpi/include/openmpi/ompi/mpi/cxx/mpicxx.h:42, from /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:2684, from ./src/mpi.h:47, from ./src/particle_polisher_mpi.h:24, from src/particle_polisher_mpi.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess.o src/apps/preprocess.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/postprocess.o src/apps/postprocess.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick.o src/apps/autopick.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish.o src/apps/particle_polish.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -o src/metadata_label.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher_mpi.cpp -o src/particle_polisher_mpi.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort.o src/apps/particle_sort.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind.o src/apps/run_ctffind.cpp In file included from /usr/include/stdio.h:873, from /usr/include/fftw3.h:50, from ./src/fftw.h:49, from ./src/projector.h:23, from ./src/backprojector.h:31, from src/apps/reconstruct.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/star_compare.o src/apps/star_compare.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/find_tiltpairs.o src/apps/find_tiltpairs.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/tiltpair_plot.o src/apps/tiltpair_plot.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine_mpi.o src/apps/refine_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess_mpi.o src/apps/preprocess_mpi.cpp In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/stdexcept:39, from /usr/include/c++/8/array:39, from /usr/include/c++/8/tuple:39, from /usr/include/c++/8/bits/stl_map.h:63, from /usr/include/c++/8/map:61, from /usr/lib/i386-linux-gnu/openmpi/include/openmpi/ompi/mpi/cxx/mpicxx.h:42, from /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:2684, from src/ml_optimiser_mpi.cpp:20: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick_mpi.o src/apps/autopick_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish_mpi.o src/apps/particle_polish_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -o src/ml_optimiser.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort_mpi.o src/apps/particle_sort_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind_mpi.o src/apps/run_ctffind_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/mask_create.o src/apps/mask_create.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser_mpi.cpp -o src/ml_optimiser_mpi.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/stack_create.o src/apps/stack_create.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/image_handler.o src/apps/image_handler.cpp In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from src/apps/mask_create.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from src/apps/stack_create.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from /usr/include/c++/8/cstdio:42, from /usr/include/c++/8/ext/string_conversions.h:43, from /usr/include/c++/8/bits/basic_string.h:6400, from /usr/include/c++/8/string:52, from /usr/include/c++/8/bits/locale_classes.h:40, from /usr/include/c++/8/bits/ios_base.h:41, from /usr/include/c++/8/ios:42, from /usr/include/c++/8/ostream:38, from /usr/include/c++/8/iostream:39, from ./src/funcs.h:48, from ./src/image.h:57, from src/apps/image_handler.cpp:21: In function 'size_t fread(void*, size_t, size_t, FILE*)', inlined from 'int Image::readSPIDER(long int) [with T = double]' at ./src/rwSPIDER.h:133:15: /usr/include/i386-linux-gnu/bits/stdio2.h:295:26: warning: call to '__fread_chk_warn' declared with attribute warning: fread called with bigger size * nmemb than length of destination buffer return __fread_chk_warn (__ptr, __bos0 (__ptr), __size, __n, __stream); ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 1:4:0 -Wl,-z,relro -Wl,-z,now -o librelion-1.4.la -rpath /usr/lib/i386-linux-gnu src/args.lo src/assembly.lo src/autopicker.lo src/backprojector.lo src/complex.lo src/ctf.lo src/ctffind_runner.lo src/error.lo src/euler.lo src/exp_model.lo src/fftw.lo src/filename.lo src/funcs.lo src/healpix_sampling.lo src/image.lo src/mask.lo src/matrix1d.lo src/matrix2d.lo src/memory.lo src/metadata_container.lo src/metadata_label.lo src/metadata_table.lo src/ml_model.lo src/ml_optimiser.lo src/multidim_array.lo src/numerical_recipes.lo src/parallel.lo src/particle_polisher.lo src/particle_sorter.lo src/postprocessing.lo src/preprocessing.lo src/projector.lo src/strings.lo src/symmetries.lo src/tabfuncs.lo src/time.lo src/transformations.lo 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src/Healpix_2.15a/healpix_base.o src/mpi.o src/autopicker_mpi.o src/ctffind_runner_mpi.o src/particle_polisher_mpi.o src/particle_sorter_mpi.o src/preprocessing_mpi.o src/ml_optimiser_mpi.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/librelion-1.4.a libtool: link: ( cd ".libs" && rm -f "librelion-1.4.la" && ln -s "../librelion-1.4.la" "librelion-1.4.la" ) /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o project src/apps/project.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o reconstruct src/apps/reconstruct.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 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stack_create src/apps/stack_create.o librelion-1.4.la -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/particle_polish_mpi src/apps/particle_polish_mpi.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/mask_create src/apps/mask_create.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/particle_sort_mpi src/apps/particle_sort_mpi.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o image_handler src/apps/image_handler.o librelion-1.4.la -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/stack_create src/apps/stack_create.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/image_handler src/apps/image_handler.o ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Entering directory '/build/relion-1.4+dfsg' make[3]: Entering directory '/build/relion-1.4+dfsg' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c librelion-1.4.la '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/librelion-1.4.so.1.0.4 /build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so.1 || { rm -f librelion-1.4.so.1 && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so.1; }; }) libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so || { rm -f librelion-1.4.so && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so; }; }) libtool: install: /usr/bin/install -c .libs/librelion-1.4.lai /build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu/librelion-1.4.la libtool: install: /usr/bin/install -c .libs/librelion-1.4.a /build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: chmod 644 /build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: ranlib /build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: warning: remember to run 'libtool --finish /usr/lib/i386-linux-gnu' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin' /bin/bash ./libtool --mode=install /usr/bin/install -c project '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_project' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/project /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_project /bin/bash ./libtool --mode=install /usr/bin/install -c reconstruct '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_reconstruct' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/reconstruct /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_reconstruct /bin/bash ./libtool --mode=install /usr/bin/install -c refine '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_refine' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/refine /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_refine /bin/bash ./libtool --mode=install /usr/bin/install -c preprocess '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_preprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/preprocess /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_preprocess /bin/bash ./libtool --mode=install /usr/bin/install -c postprocess '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_postprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/postprocess /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_postprocess /bin/bash ./libtool --mode=install /usr/bin/install -c autopick '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_autopick' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/autopick /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_autopick /bin/bash ./libtool --mode=install /usr/bin/install -c particle_polish '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_polish' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_polish /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_polish /bin/bash ./libtool --mode=install /usr/bin/install -c particle_sort '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_sort' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_sort /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_sort /bin/bash ./libtool --mode=install /usr/bin/install -c run_ctffind '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_run_ctffind' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/run_ctffind /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_run_ctffind /bin/bash ./libtool --mode=install /usr/bin/install -c star_compare '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_compare' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/star_compare /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_compare /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_tiltpair_plot /bin/bash ./libtool --mode=install /usr/bin/install -c refine_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_refine_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/refine_mpi /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_refine_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c preprocess_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_preprocess_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/preprocess_mpi /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_preprocess_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c autopick_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_autopick_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/autopick_mpi /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_autopick_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c particle_polish_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_polish_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_polish_mpi /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_polish_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c particle_sort_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_sort_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_sort_mpi /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_particle_sort_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c run_ctffind_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_run_ctffind_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/run_ctffind_mpi /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_run_ctffind_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c mask_create '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_mask_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/mask_create /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_mask_create /bin/bash ./libtool --mode=install /usr/bin/install -c stack_create '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_stack_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/stack_create /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_stack_create /bin/bash ./libtool --mode=install /usr/bin/install -c image_handler '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_image_handler' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/image_handler /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_image_handler /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_tiltpair_plot /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin' /usr/bin/install -c scripts/star_datablock_ctfdat '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_datablock_ctfdat' /usr/bin/install -c scripts/star_datablock_stack '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_datablock_stack' /usr/bin/install -c scripts/star_datablock_singlefiles '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_datablock_singlefiles' /usr/bin/install -c scripts/star_loopheader '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_loopheader' /usr/bin/install -c scripts/star_plottable '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_plottable' /usr/bin/install -c scripts/star_printtable '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_star_printtable' /usr/bin/install -c scripts/qsub.csh '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/bin/./relion_qsub.csh' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/args.h src/assembly.h src/autopicker.h src/backprojector.h src/complex.h src/ctf.h src/ctffind_runner.h src/displayer.h src/error.h src/euler.h src/exp_model.h src/fftw.h src/filename.h src/funcs.h src/gcc_version.h src/gui_entries.h src/gui_jobwindow.h src/gui_mainwindow.h src/healpix_sampling.h src/image.h src/macros.h src/mask.h src/matrix1d.h src/matrix2d.h src/memory.h src/metadata_container.h src/metadata_label.h src/metadata_table.h src/ml_model.h src/ml_optimiser.h src/multidim_array.h src/numerical_recipes.h src/parallel.h src/particle_polisher.h src/particle_sorter.h src/postprocessing.h src/preprocessing.h src/projector.h src/rwIMAGIC.h src/rwMRC.h '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/rwSPIDER.h src/strings.h src/symmetries.h src/tabfuncs.h src/time.h src/transformations.h src/mpi.h src/autopicker_mpi.h src/ctffind_runner_mpi.h src/particle_polisher_mpi.h src/particle_sorter_mpi.h src/preprocessing_mpi.h src/ml_optimiser_mpi.h '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 src/Healpix_2.15a/arr.h src/Healpix_2.15a/cxxutils.h src/Healpix_2.15a/datatypes.h src/Healpix_2.15a/geom_utils.h src/Healpix_2.15a/lsconstants.h src/Healpix_2.15a/message_error.h src/Healpix_2.15a/openmp_support.h src/Healpix_2.15a/pointing.h src/Healpix_2.15a/vec3.h src/Healpix_2.15a/healpix_base.h '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 relion.h '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/include/relion-1.4/.' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 relion-1.4.pc '/build/relion-1.4+dfsg/debian/tmp/mpi/usr/lib/i386-linux-gnu/pkgconfig' make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make clean make[2]: Entering directory '/build/relion-1.4+dfsg' rm -f project reconstruct refine preprocess postprocess autopick particle_polish particle_sort run_ctffind star_compare find_tiltpairs tiltpair_plot refine_mpi preprocess_mpi autopick_mpi particle_polish_mpi particle_sort_mpi run_ctffind_mpi mask_create stack_create image_handler find_tiltpairs tiltpair_plot test -z "librelion-1.4.la" || rm -f librelion-1.4.la rm -f ./so_locations rm -rf .libs _libs rm -rf src/.libs src/_libs rm -rf src/Healpix_2.15a/.libs src/Healpix_2.15a/_libs rm -f *.o rm -f src/*.o rm -f src/*.lo rm -f src/Healpix_2.15a/*.o rm -f src/Healpix_2.15a/*.lo rm -f src/apps/*.o rm -f *.lo make[2]: Leaving directory '/build/relion-1.4+dfsg' # ... then add GUI (for relion-bin+gui) ... dh_auto_configure -- --libdir=\${prefix}/lib/i386-linux-gnu --enable-gui \ CPPFLAGS="$(fltk-config --cxxflags)" \ LDFLAGS="$(fltk-config --ldflags)" ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --libdir=\${prefix}/lib/i386-linux-gnu --enable-gui "CPPFLAGS=-I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 " "LDFLAGS=-lfltk -lX11" configure: WARNING: unrecognized options: --disable-maintainer-mode 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 build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu 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 i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu 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 ar... ar 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... yes 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 for fftw3.h... yes checking for main in -lfftw3... yes checking for fftw_plan_with_nthreads in -lfftw3_threads... yes checking for /usr/bin/fltk-config... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating relion-1.4.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode make -j10; make install prefix=/build/relion-1.4+dfsg/debian/tmp/gui/usr make[2]: Entering directory '/build/relion-1.4+dfsg' make all-am make[3]: Entering directory '/build/relion-1.4+dfsg' g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/project.o src/apps/project.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/args.lo src/args.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/assembly.lo src/assembly.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker.lo src/autopicker.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/backprojector.lo src/backprojector.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/complex.lo src/complex.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctf.lo src/ctf.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner.lo src/ctffind_runner.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/error.lo src/error.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/euler.lo src/euler.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -fPIC -DPIC -o src/.libs/assembly.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -fPIC -DPIC -o src/.libs/args.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -fPIC -DPIC -o src/.libs/ctf.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -fPIC -DPIC -o src/.libs/ctffind_runner.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -fPIC -DPIC -o src/.libs/complex.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -fPIC -DPIC -o src/.libs/backprojector.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -fPIC -DPIC -o src/.libs/euler.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -fPIC -DPIC -o src/.libs/autopicker.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -fPIC -DPIC -o src/.libs/error.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -o src/error.o >/dev/null 2>&1 src/args.cpp: In member function 'IOParser& IOParser::operator=(const IOParser&)': src/args.cpp:104:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/assembly.cpp: In member function 'void Assembly::writePDB(std::__cxx11::string)': src/assembly.cpp:355:19: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] fprintf(file, "ATOM %5d %-4s %3s %1c%4d %8.3f%8.3f%8.3f%6.2f%6.2f %4s\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atomnum, molecules[imol].residues[ires].atoms[iatom].name.c_str(), molecules[imol].residues[ires].name.c_str(), ~~~~~~~ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -o src/complex.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/exp_model.lo src/exp_model.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/fftw.lo src/fftw.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -fPIC -DPIC -o src/.libs/exp_model.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -fPIC -DPIC -o src/.libs/fftw.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -o src/euler.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -o src/ctf.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -o src/args.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/filename.lo src/filename.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -fPIC -DPIC -o src/.libs/filename.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/funcs.lo src/funcs.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -fPIC -DPIC -o src/.libs/funcs.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/healpix_sampling.lo src/healpix_sampling.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -fPIC -DPIC -o src/.libs/healpix_sampling.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -o src/assembly.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -o src/funcs.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -o src/filename.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -o src/backprojector.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -o src/fftw.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/image.lo src/image.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -fPIC -DPIC -o src/.libs/image.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mask.lo src/mask.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix1d.lo src/matrix1d.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -fPIC -DPIC -o src/.libs/mask.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -fPIC -DPIC -o src/.libs/matrix1d.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -o src/ctffind_runner.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -o src/matrix1d.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix2d.lo src/matrix2d.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat 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-I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -o src/matrix2d.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -o src/image.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo 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-I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -fPIC -DPIC -o src/.libs/particle_polisher.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c 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-I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -o src/numerical_recipes.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter.lo src/particle_sorter.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. 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-I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/postprocessing.lo src/postprocessing.cpp /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing.lo src/preprocessing.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include 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-ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -fPIC -DPIC -o src/.libs/preprocessing.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/projector.lo src/projector.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -fPIC -DPIC -o src/.libs/projector.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat 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-I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/symmetries.lo src/symmetries.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -fPIC -DPIC -o src/.libs/symmetries.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -o src/strings.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/tabfuncs.lo src/tabfuncs.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -fPIC -DPIC -o src/.libs/tabfuncs.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -o src/ml_model.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat 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-I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/time.lo src/time.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -fPIC -DPIC -o src/.libs/time.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -o src/particle_sorter.o >/dev/null 2>&1 src/time.cpp: In member function 'int Timer::toc(int)': src/time.cpp:223:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -o src/symmetries.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -o src/time.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/transformations.lo src/transformations.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -fPIC -DPIC -o src/.libs/transformations.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -o src/postprocessing.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -o src/preprocessing.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -o src/transformations.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/cxxutils.lo src/Healpix_2.15a/cxxutils.cc libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/cxxutils.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/healpix_base.lo src/Healpix_2.15a/healpix_base.cc libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/healpix_base.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/displayer.lo src/displayer.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -o src/particle_polisher.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/displayer.cpp -fPIC -DPIC -o src/.libs/displayer.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -o src/Healpix_2.15a/healpix_base.o >/dev/null 2>&1 In file included from src/displayer.cpp:21: ./src/displayer.h: In member function 'int popupInputWindow::fill(std::__cxx11::string, double&)': ./src/displayer.h:327:2: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/displayer.cpp: In member function 'int basisViewerCanvas::fill(MetaDataTable&, EMDLabel, bool, double, double, double, double, int)': src/displayer.cpp:412:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/displayer.cpp: In member function 'int basisViewerCanvas::fill(MultidimArray&, double, double, double, double)': src/displayer.cpp:429:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/displayer.cpp: In member function 'int basisViewerWindow::fillCanvas(int, MetaDataTable&, EMDLabel, bool, bool, double, double, double, double, double, int, bool, MetaDataTable*, int, bool, MetaDataTable*)': src/displayer.cpp:170:36: warning: control reaches end of non-void function [-Wreturn-type] Fl_Scroll scroll(0, 0, w(), h()); ^ src/displayer.cpp: In member function 'int Displayer::runGui()': src/displayer.cpp:1783:53: warning: control reaches end of non-void function [-Wreturn-type] "Choose file to display"); // title ^ src/displayer.cpp: In member function 'int Displayer::run()': src/displayer.cpp:1967:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_entries.lo src/gui_entries.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_entries.cpp -fPIC -DPIC -o src/.libs/gui_entries.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_jobwindow.lo src/gui_jobwindow.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_jobwindow.cpp -fPIC -DPIC -o src/.libs/gui_jobwindow.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -o src/Healpix_2.15a/cxxutils.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_entries.cpp -o src/gui_entries.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_mainwindow.lo src/gui_mainwindow.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_mainwindow.cpp -fPIC -DPIC -o src/.libs/gui_mainwindow.o /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/manualpicker.lo src/manualpicker.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/manualpicker.cpp -fPIC -DPIC -o src/.libs/manualpicker.o g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/reconstruct.o src/apps/reconstruct.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_mainwindow.cpp -o src/gui_mainwindow.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine.o src/apps/refine.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess.o src/apps/preprocess.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/postprocess.o src/apps/postprocess.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick.o src/apps/autopick.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish.o src/apps/particle_polish.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort.o src/apps/particle_sort.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/manualpicker.cpp -o src/manualpicker.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -o src/metadata_label.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind.o src/apps/run_ctffind.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/star_compare.o src/apps/star_compare.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/find_tiltpairs.o src/apps/find_tiltpairs.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/displayer.cpp -o src/displayer.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/tiltpair_plot.o src/apps/tiltpair_plot.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/manualpick.o src/apps/manualpick.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/display.o src/apps/display.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/maingui.o src/apps/maingui.cpp g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/mask_create.o src/apps/mask_create.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -o src/ml_optimiser.o >/dev/null 2>&1 In file included from src/apps/display.cpp:31: ./src/displayer.h: In member function 'int popupInputWindow::fill(std::__cxx11::string, double&)': ./src/displayer.h:327:2: warning: no return statement in function returning non-void [-Wreturn-type] } ^ g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/stack_create.o src/apps/stack_create.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_jobwindow.cpp -o src/gui_jobwindow.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/image_handler.o src/apps/image_handler.cpp /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 1:4:0 -lfltk -lX11 -o librelion-1.4.la -rpath /usr/lib/i386-linux-gnu src/args.lo src/assembly.lo src/autopicker.lo src/backprojector.lo src/complex.lo src/ctf.lo src/ctffind_runner.lo src/error.lo src/euler.lo src/exp_model.lo src/fftw.lo src/filename.lo src/funcs.lo src/healpix_sampling.lo src/image.lo src/mask.lo src/matrix1d.lo src/matrix2d.lo src/memory.lo src/metadata_container.lo src/metadata_label.lo src/metadata_table.lo src/ml_model.lo src/ml_optimiser.lo src/multidim_array.lo src/numerical_recipes.lo src/parallel.lo src/particle_polisher.lo src/particle_sorter.lo src/postprocessing.lo src/preprocessing.lo src/projector.lo src/strings.lo src/symmetries.lo src/tabfuncs.lo src/time.lo src/transformations.lo src/Healpix_2.15a/cxxutils.lo src/Healpix_2.15a/healpix_base.lo src/displayer.lo src/gui_entries.lo src/gui_jobwindow.lo src/gui_mainwindow.lo src/manualpicker.lo -lfftw3_threads -lfftw3 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/8/crtbeginS.o src/.libs/args.o src/.libs/assembly.o src/.libs/autopicker.o src/.libs/backprojector.o src/.libs/complex.o src/.libs/ctf.o src/.libs/ctffind_runner.o src/.libs/error.o src/.libs/euler.o src/.libs/exp_model.o src/.libs/fftw.o src/.libs/filename.o src/.libs/funcs.o src/.libs/healpix_sampling.o src/.libs/image.o src/.libs/mask.o src/.libs/matrix1d.o src/.libs/matrix2d.o src/.libs/memory.o src/.libs/metadata_container.o src/.libs/metadata_label.o src/.libs/metadata_table.o src/.libs/ml_model.o src/.libs/ml_optimiser.o src/.libs/multidim_array.o src/.libs/numerical_recipes.o src/.libs/parallel.o src/.libs/particle_polisher.o src/.libs/particle_sorter.o src/.libs/postprocessing.o src/.libs/preprocessing.o src/.libs/projector.o src/.libs/strings.o src/.libs/symmetries.o src/.libs/tabfuncs.o src/.libs/time.o src/.libs/transformations.o src/Healpix_2.15a/.libs/cxxutils.o src/Healpix_2.15a/.libs/healpix_base.o src/.libs/displayer.o src/.libs/gui_entries.o src/.libs/gui_jobwindow.o src/.libs/gui_mainwindow.o src/.libs/manualpicker.o -lfltk -lX11 -lfftw3_threads -lfftw3 -L/usr/lib/gcc/i686-linux-gnu/8 -L/usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/8/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/8/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/8/crtendS.o /usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-soname -Wl,librelion-1.4.so.1 -o .libs/librelion-1.4.so.1.0.4 libtool: link: (cd ".libs" && rm -f "librelion-1.4.so.1" && ln -s "librelion-1.4.so.1.0.4" "librelion-1.4.so.1") libtool: link: (cd ".libs" && rm -f "librelion-1.4.so" && ln -s "librelion-1.4.so.1.0.4" "librelion-1.4.so") libtool: link: ar cru .libs/librelion-1.4.a src/args.o src/assembly.o src/autopicker.o src/backprojector.o src/complex.o src/ctf.o src/ctffind_runner.o src/error.o src/euler.o src/exp_model.o src/fftw.o src/filename.o src/funcs.o src/healpix_sampling.o src/image.o src/mask.o src/matrix1d.o src/matrix2d.o src/memory.o src/metadata_container.o src/metadata_label.o src/metadata_table.o src/ml_model.o src/ml_optimiser.o src/multidim_array.o src/numerical_recipes.o src/parallel.o src/particle_polisher.o src/particle_sorter.o src/postprocessing.o src/preprocessing.o src/projector.o src/strings.o src/symmetries.o src/tabfuncs.o src/time.o src/transformations.o src/Healpix_2.15a/cxxutils.o src/Healpix_2.15a/healpix_base.o src/displayer.o src/gui_entries.o src/gui_jobwindow.o src/gui_mainwindow.o src/manualpicker.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/librelion-1.4.a libtool: link: ( cd ".libs" && rm -f "librelion-1.4.la" && ln -s "../librelion-1.4.la" "librelion-1.4.la" ) /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o project src/apps/project.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o reconstruct src/apps/reconstruct.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o refine src/apps/refine.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o preprocess src/apps/preprocess.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o postprocess src/apps/postprocess.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o autopick src/apps/autopick.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o particle_polish src/apps/particle_polish.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o particle_sort src/apps/particle_sort.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o run_ctffind src/apps/run_ctffind.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o star_compare src/apps/star_compare.o librelion-1.4.la -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/refine src/apps/refine.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/autopick src/apps/autopick.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/run_ctffind src/apps/run_ctffind.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/particle_polish src/apps/particle_polish.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/project src/apps/project.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/reconstruct src/apps/reconstruct.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/particle_sort src/apps/particle_sort.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/star_compare src/apps/star_compare.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/preprocess src/apps/preprocess.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/postprocess src/apps/postprocess.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o find_tiltpairs src/apps/find_tiltpairs.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o tiltpair_plot src/apps/tiltpair_plot.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o manualpick src/apps/manualpick.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o display src/apps/display.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o maingui src/apps/maingui.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o mask_create src/apps/mask_create.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o stack_create src/apps/stack_create.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o image_handler src/apps/image_handler.o librelion-1.4.la -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/tiltpair_plot src/apps/tiltpair_plot.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/manualpick src/apps/manualpick.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/display src/apps/display.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/find_tiltpairs src/apps/find_tiltpairs.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/image_handler src/apps/image_handler.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/stack_create src/apps/stack_create.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/mask_create src/apps/mask_create.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: g++ -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/maingui src/apps/maingui.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Entering directory '/build/relion-1.4+dfsg' make[3]: Entering directory '/build/relion-1.4+dfsg' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c librelion-1.4.la '/build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/librelion-1.4.so.1.0.4 /build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so.1 || { rm -f librelion-1.4.so.1 && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so.1; }; }) libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so || { rm -f librelion-1.4.so && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so; }; }) libtool: install: /usr/bin/install -c .libs/librelion-1.4.lai /build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu/librelion-1.4.la libtool: install: /usr/bin/install -c .libs/librelion-1.4.a /build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: chmod 644 /build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: ranlib /build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: warning: remember to run 'libtool --finish /usr/lib/i386-linux-gnu' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin' /bin/bash ./libtool --mode=install /usr/bin/install -c project '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_project' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/project /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_project /bin/bash ./libtool --mode=install /usr/bin/install -c reconstruct '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_reconstruct' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/reconstruct /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_reconstruct /bin/bash ./libtool --mode=install /usr/bin/install -c refine '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_refine' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/refine /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_refine /bin/bash ./libtool --mode=install /usr/bin/install -c preprocess '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_preprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/preprocess /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_preprocess /bin/bash ./libtool --mode=install /usr/bin/install -c postprocess '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_postprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/postprocess /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_postprocess /bin/bash ./libtool --mode=install /usr/bin/install -c autopick '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_autopick' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/autopick /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_autopick /bin/bash ./libtool --mode=install /usr/bin/install -c particle_polish '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_particle_polish' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_polish /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_particle_polish /bin/bash ./libtool --mode=install /usr/bin/install -c particle_sort '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_particle_sort' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_sort /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_particle_sort /bin/bash ./libtool --mode=install /usr/bin/install -c run_ctffind '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_run_ctffind' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/run_ctffind /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_run_ctffind /bin/bash ./libtool --mode=install /usr/bin/install -c star_compare '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_compare' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/star_compare /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_compare /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_tiltpair_plot /bin/bash ./libtool --mode=install /usr/bin/install -c manualpick '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_manualpick' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/manualpick /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_manualpick /bin/bash ./libtool --mode=install /usr/bin/install -c display '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_display' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/display /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_display /bin/bash ./libtool --mode=install /usr/bin/install -c maingui '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_maingui' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/maingui /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_maingui /bin/bash ./libtool --mode=install /usr/bin/install -c mask_create '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_mask_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/mask_create /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_mask_create /bin/bash ./libtool --mode=install /usr/bin/install -c stack_create '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_stack_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/stack_create /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_stack_create /bin/bash ./libtool --mode=install /usr/bin/install -c image_handler '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_image_handler' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/image_handler /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_image_handler /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_tiltpair_plot /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin' /usr/bin/install -c scripts/star_datablock_ctfdat '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_datablock_ctfdat' /usr/bin/install -c scripts/star_datablock_stack '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_datablock_stack' /usr/bin/install -c scripts/star_datablock_singlefiles '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_datablock_singlefiles' /usr/bin/install -c scripts/star_loopheader '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_loopheader' /usr/bin/install -c scripts/star_plottable '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_plottable' /usr/bin/install -c scripts/star_printtable '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_star_printtable' /usr/bin/install -c scripts/qsub.csh '/build/relion-1.4+dfsg/debian/tmp/gui/usr/bin/./relion_qsub.csh' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/args.h src/assembly.h src/autopicker.h src/backprojector.h src/complex.h src/ctf.h src/ctffind_runner.h src/displayer.h src/error.h src/euler.h src/exp_model.h src/fftw.h src/filename.h src/funcs.h src/gcc_version.h src/gui_entries.h src/gui_jobwindow.h src/gui_mainwindow.h src/healpix_sampling.h src/image.h src/macros.h src/mask.h src/matrix1d.h src/matrix2d.h src/memory.h src/metadata_container.h src/metadata_label.h src/metadata_table.h src/ml_model.h src/ml_optimiser.h src/multidim_array.h src/numerical_recipes.h src/parallel.h src/particle_polisher.h src/particle_sorter.h src/postprocessing.h src/preprocessing.h src/projector.h src/rwIMAGIC.h src/rwMRC.h '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/rwSPIDER.h src/strings.h src/symmetries.h src/tabfuncs.h src/time.h src/transformations.h src/displayer.h src/gui_entries.h src/gui_jobwindow.h src/gui_mainwindow.h src/manualpicker.h '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 src/Healpix_2.15a/arr.h src/Healpix_2.15a/cxxutils.h src/Healpix_2.15a/datatypes.h src/Healpix_2.15a/geom_utils.h src/Healpix_2.15a/lsconstants.h src/Healpix_2.15a/message_error.h src/Healpix_2.15a/openmp_support.h src/Healpix_2.15a/pointing.h src/Healpix_2.15a/vec3.h src/Healpix_2.15a/healpix_base.h '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 relion.h '/build/relion-1.4+dfsg/debian/tmp/gui/usr/include/relion-1.4/.' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 relion-1.4.pc '/build/relion-1.4+dfsg/debian/tmp/gui/usr/lib/i386-linux-gnu/pkgconfig' make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make clean make[2]: Entering directory '/build/relion-1.4+dfsg' rm -f project reconstruct refine preprocess postprocess autopick particle_polish particle_sort run_ctffind star_compare find_tiltpairs tiltpair_plot manualpick display maingui mask_create stack_create image_handler find_tiltpairs tiltpair_plot test -z "librelion-1.4.la" || rm -f librelion-1.4.la rm -f ./so_locations rm -rf .libs _libs rm -rf src/.libs src/_libs rm -rf src/Healpix_2.15a/.libs src/Healpix_2.15a/_libs rm -f *.o rm -f src/*.o rm -f src/*.lo rm -f src/Healpix_2.15a/*.o rm -f src/Healpix_2.15a/*.lo rm -f src/apps/*.o rm -f *.lo make[2]: Leaving directory '/build/relion-1.4+dfsg' # ... finally add MPI + GUI (for librelion-bin+mpi+gui) MPICXX=mpicxx.openmpi dh_auto_configure -- --libdir=\${prefix}/lib/i386-linux-gnu --enable-mpi --enable-gui \ CPPFLAGS="$(fltk-config --cxxflags)" \ LDFLAGS="$(fltk-config --ldflags)" ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --libdir=\${prefix}/lib/i386-linux-gnu --enable-mpi --enable-gui "CPPFLAGS=-I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 " "LDFLAGS=-lfltk -lX11" configure: WARNING: unrecognized options: --disable-maintainer-mode 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 build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu 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 i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu 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 ar... ar 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... yes 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 for mpic++... mpicxx.openmpi checking for fftw3.h... yes checking for main in -lfftw3... yes checking for fftw_plan_with_nthreads in -lfftw3_threads... yes checking for /usr/bin/fltk-config... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating relion-1.4.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode make -j10; make install prefix=/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr make[2]: Entering directory '/build/relion-1.4+dfsg' make all-am make[3]: Entering directory '/build/relion-1.4+dfsg' mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/project.o src/apps/project.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/args.lo src/args.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/assembly.lo src/assembly.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker.lo src/autopicker.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/backprojector.lo src/backprojector.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/complex.lo src/complex.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctf.lo src/ctf.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner.lo src/ctffind_runner.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/error.lo src/error.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/euler.lo src/euler.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -fPIC -DPIC -o src/.libs/autopicker.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -fPIC -DPIC -o src/.libs/error.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -fPIC -DPIC -o src/.libs/args.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -fPIC -DPIC -o src/.libs/assembly.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -fPIC -DPIC -o src/.libs/complex.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -fPIC -DPIC -o src/.libs/ctffind_runner.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -fPIC -DPIC -o src/.libs/euler.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -fPIC -DPIC -o src/.libs/backprojector.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -fPIC -DPIC -o src/.libs/ctf.o src/args.cpp: In member function 'IOParser& IOParser::operator=(const IOParser&)': src/args.cpp:104:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/assembly.cpp: In member function 'void Assembly::writePDB(std::__cxx11::string)': src/assembly.cpp:355:19: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] fprintf(file, "ATOM %5d %-4s %3s %1c%4d %8.3f%8.3f%8.3f%6.2f%6.2f %4s\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atomnum, molecules[imol].residues[ires].atoms[iatom].name.c_str(), molecules[imol].residues[ires].name.c_str(), ~~~~~~~ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -o src/complex.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -o src/error.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/exp_model.lo src/exp_model.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -fPIC -DPIC -o src/.libs/exp_model.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/fftw.lo src/fftw.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -fPIC -DPIC -o src/.libs/fftw.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -o src/euler.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -o src/ctf.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -o src/args.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/filename.lo src/filename.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -fPIC -DPIC -o src/.libs/filename.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/funcs.lo src/funcs.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -fPIC -DPIC -o src/.libs/funcs.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/healpix_sampling.lo src/healpix_sampling.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -o src/backprojector.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -o src/filename.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -fPIC -DPIC -o src/.libs/healpix_sampling.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -o src/funcs.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -o src/assembly.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -o src/fftw.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/image.lo src/image.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -fPIC -DPIC -o src/.libs/image.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -o src/ctffind_runner.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mask.lo src/mask.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix1d.lo src/matrix1d.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -fPIC -DPIC -o src/.libs/mask.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -fPIC -DPIC -o src/.libs/matrix1d.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -o src/matrix1d.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix2d.lo src/matrix2d.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -o src/mask.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -fPIC -DPIC -o src/.libs/matrix2d.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -o src/image.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -o src/matrix2d.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -o src/exp_model.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -o src/autopicker.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/memory.lo src/memory.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_container.lo src/metadata_container.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/memory.cpp -fPIC -DPIC -o src/.libs/memory.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_label.lo src/metadata_label.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_container.cpp -fPIC -DPIC -o src/.libs/metadata_container.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -fPIC -DPIC -o src/.libs/metadata_label.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_table.lo src/metadata_table.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -fPIC -DPIC -o src/.libs/metadata_table.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/memory.cpp -o src/memory.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_model.lo src/ml_model.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_optimiser.lo src/ml_optimiser.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -fPIC -DPIC -o src/.libs/ml_model.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/multidim_array.lo src/multidim_array.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -fPIC -DPIC -o src/.libs/ml_optimiser.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -fPIC -DPIC -o src/.libs/multidim_array.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -o src/healpix_sampling.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -o src/multidim_array.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_container.cpp -o src/metadata_container.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/numerical_recipes.lo src/numerical_recipes.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -fPIC -DPIC -o src/.libs/numerical_recipes.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -o src/numerical_recipes.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/parallel.lo src/parallel.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -fPIC -DPIC -o src/.libs/parallel.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -o src/metadata_table.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -o src/parallel.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_polisher.lo src/particle_polisher.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -fPIC -DPIC -o src/.libs/particle_polisher.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter.lo src/particle_sorter.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -fPIC -DPIC -o src/.libs/particle_sorter.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/postprocessing.lo src/postprocessing.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -fPIC -DPIC -o src/.libs/postprocessing.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing.lo src/preprocessing.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -fPIC -DPIC -o src/.libs/preprocessing.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/projector.lo src/projector.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/strings.lo src/strings.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -fPIC -DPIC -o src/.libs/projector.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -fPIC -DPIC -o src/.libs/strings.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/symmetries.lo src/symmetries.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -fPIC -DPIC -o src/.libs/symmetries.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -o src/strings.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/tabfuncs.lo src/tabfuncs.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -o src/ml_model.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -fPIC -DPIC -o src/.libs/tabfuncs.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -o src/particle_sorter.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -o src/projector.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -o src/tabfuncs.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -o src/postprocessing.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/time.lo src/time.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -fPIC -DPIC -o src/.libs/time.o src/time.cpp: In member function 'int Timer::toc(int)': src/time.cpp:223:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -o src/symmetries.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -o src/time.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/transformations.lo src/transformations.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -fPIC -DPIC -o src/.libs/transformations.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -o src/preprocessing.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/cxxutils.lo src/Healpix_2.15a/cxxutils.cc libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -o src/transformations.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/cxxutils.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/healpix_base.lo src/Healpix_2.15a/healpix_base.cc libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -o src/particle_polisher.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/healpix_base.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mpi.lo src/mpi.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker_mpi.lo src/autopicker_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mpi.cpp -fPIC -DPIC -o src/.libs/mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker_mpi.cpp -fPIC -DPIC -o src/.libs/autopicker_mpi.o src/mpi.cpp: In constructor 'MpiNode::MpiNode(int&, char**)': src/mpi.cpp:56:57: warning: 'int MPI_Errhandler_set(MPI_Comm, MPI_Errhandler)' is deprecated: MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0 [-Wdeprecated-declarations] MPI_Errhandler_set(MPI_COMM_WORLD, MPI_ERRORS_RETURN); ^ In file included from ./src/mpi.h:47, from src/mpi.cpp:46: /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:1338:20: note: declared here OMPI_DECLSPEC int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) ^~~~~~~~~~~~~~~~~~ src/mpi.cpp:56:57: warning: 'int MPI_Errhandler_set(MPI_Comm, MPI_Errhandler)' is deprecated: MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0 [-Wdeprecated-declarations] MPI_Errhandler_set(MPI_COMM_WORLD, MPI_ERRORS_RETURN); ^ In file included from ./src/mpi.h:47, from src/mpi.cpp:46: /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:1338:20: note: declared here OMPI_DECLSPEC int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) ^~~~~~~~~~~~~~~~~~ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -o src/Healpix_2.15a/healpix_base.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -o src/Healpix_2.15a/cxxutils.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mpi.cpp -o src/mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner_mpi.lo src/ctffind_runner_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner_mpi.cpp -fPIC -DPIC -o src/.libs/ctffind_runner_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker_mpi.cpp -o src/autopicker_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_polisher_mpi.lo src/particle_polisher_mpi.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter_mpi.lo src/particle_sorter_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter_mpi.cpp -fPIC -DPIC -o src/.libs/particle_sorter_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher_mpi.cpp -fPIC -DPIC -o src/.libs/particle_polisher_mpi.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing_mpi.lo src/preprocessing_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing_mpi.cpp -fPIC -DPIC -o src/.libs/preprocessing_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner_mpi.cpp -o src/ctffind_runner_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_optimiser_mpi.lo src/ml_optimiser_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser_mpi.cpp -fPIC -DPIC -o src/.libs/ml_optimiser_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing_mpi.cpp -o src/preprocessing_mpi.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter_mpi.cpp -o src/particle_sorter_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/displayer.lo src/displayer.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/displayer.cpp -fPIC -DPIC -o src/.libs/displayer.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_entries.lo src/gui_entries.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_entries.cpp -fPIC -DPIC -o src/.libs/gui_entries.o In file included from src/displayer.cpp:21: ./src/displayer.h: In member function 'int popupInputWindow::fill(std::__cxx11::string, double&)': ./src/displayer.h:327:2: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/displayer.cpp: In member function 'int basisViewerCanvas::fill(MetaDataTable&, EMDLabel, bool, double, double, double, double, int)': src/displayer.cpp:412:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/displayer.cpp: In member function 'int basisViewerCanvas::fill(MultidimArray&, double, double, double, double)': src/displayer.cpp:429:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_jobwindow.lo src/gui_jobwindow.cpp src/displayer.cpp: In member function 'int basisViewerWindow::fillCanvas(int, MetaDataTable&, EMDLabel, bool, bool, double, double, double, double, double, int, bool, MetaDataTable*, int, bool, MetaDataTable*)': src/displayer.cpp:170:36: warning: control reaches end of non-void function [-Wreturn-type] Fl_Scroll scroll(0, 0, w(), h()); ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_jobwindow.cpp -fPIC -DPIC -o src/.libs/gui_jobwindow.o src/displayer.cpp: In member function 'int Displayer::runGui()': src/displayer.cpp:1783:53: warning: control reaches end of non-void function [-Wreturn-type] "Choose file to display"); // title ^ src/displayer.cpp: In member function 'int Displayer::run()': src/displayer.cpp:1967:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_entries.cpp -o src/gui_entries.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_mainwindow.lo src/gui_mainwindow.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_mainwindow.cpp -fPIC -DPIC -o src/.libs/gui_mainwindow.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/manualpicker.lo src/manualpicker.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/manualpicker.cpp -fPIC -DPIC -o src/.libs/manualpicker.o mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/reconstruct.o src/apps/reconstruct.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -o src/metadata_label.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_mainwindow.cpp -o src/gui_mainwindow.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher_mpi.cpp -o src/particle_polisher_mpi.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine.o src/apps/refine.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser_mpi.cpp -o src/ml_optimiser_mpi.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess.o src/apps/preprocess.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/manualpicker.cpp -o src/manualpicker.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/postprocess.o src/apps/postprocess.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -o src/ml_optimiser.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick.o src/apps/autopick.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish.o src/apps/particle_polish.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort.o src/apps/particle_sort.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind.o src/apps/run_ctffind.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/star_compare.o src/apps/star_compare.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/displayer.cpp -o src/displayer.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/find_tiltpairs.o src/apps/find_tiltpairs.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/tiltpair_plot.o src/apps/tiltpair_plot.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine_mpi.o src/apps/refine_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess_mpi.o src/apps/preprocess_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick_mpi.o src/apps/autopick_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_jobwindow.cpp -o src/gui_jobwindow.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish_mpi.o src/apps/particle_polish_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort_mpi.o src/apps/particle_sort_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind_mpi.o src/apps/run_ctffind_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/manualpick.o src/apps/manualpick.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/display.o src/apps/display.cpp In file included from src/apps/display.cpp:31: ./src/displayer.h: In member function 'int popupInputWindow::fill(std::__cxx11::string, double&)': ./src/displayer.h:327:2: warning: no return statement in function returning non-void [-Wreturn-type] } ^ mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/maingui.o src/apps/maingui.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/mask_create.o src/apps/mask_create.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/stack_create.o src/apps/stack_create.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/image_handler.o src/apps/image_handler.cpp /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 1:4:0 -lfltk -lX11 -o librelion-1.4.la -rpath /usr/lib/i386-linux-gnu src/args.lo src/assembly.lo src/autopicker.lo src/backprojector.lo src/complex.lo src/ctf.lo src/ctffind_runner.lo src/error.lo src/euler.lo src/exp_model.lo src/fftw.lo src/filename.lo src/funcs.lo src/healpix_sampling.lo src/image.lo src/mask.lo src/matrix1d.lo src/matrix2d.lo src/memory.lo src/metadata_container.lo src/metadata_label.lo src/metadata_table.lo src/ml_model.lo src/ml_optimiser.lo src/multidim_array.lo src/numerical_recipes.lo src/parallel.lo src/particle_polisher.lo src/particle_sorter.lo src/postprocessing.lo src/preprocessing.lo src/projector.lo src/strings.lo src/symmetries.lo src/tabfuncs.lo src/time.lo src/transformations.lo src/Healpix_2.15a/cxxutils.lo src/Healpix_2.15a/healpix_base.lo src/mpi.lo src/autopicker_mpi.lo src/ctffind_runner_mpi.lo src/particle_polisher_mpi.lo src/particle_sorter_mpi.lo src/preprocessing_mpi.lo src/ml_optimiser_mpi.lo src/displayer.lo src/gui_entries.lo src/gui_jobwindow.lo src/gui_mainwindow.lo src/manualpicker.lo -lfftw3_threads -lfftw3 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu/crti.o /usr/lib/gcc/i686-linux-gnu/8/crtbeginS.o src/.libs/args.o src/.libs/assembly.o src/.libs/autopicker.o src/.libs/backprojector.o src/.libs/complex.o src/.libs/ctf.o src/.libs/ctffind_runner.o src/.libs/error.o src/.libs/euler.o src/.libs/exp_model.o src/.libs/fftw.o src/.libs/filename.o src/.libs/funcs.o src/.libs/healpix_sampling.o src/.libs/image.o src/.libs/mask.o src/.libs/matrix1d.o src/.libs/matrix2d.o src/.libs/memory.o src/.libs/metadata_container.o src/.libs/metadata_label.o src/.libs/metadata_table.o src/.libs/ml_model.o src/.libs/ml_optimiser.o src/.libs/multidim_array.o src/.libs/numerical_recipes.o src/.libs/parallel.o src/.libs/particle_polisher.o src/.libs/particle_sorter.o src/.libs/postprocessing.o src/.libs/preprocessing.o src/.libs/projector.o src/.libs/strings.o src/.libs/symmetries.o src/.libs/tabfuncs.o src/.libs/time.o src/.libs/transformations.o src/Healpix_2.15a/.libs/cxxutils.o src/Healpix_2.15a/.libs/healpix_base.o src/.libs/mpi.o src/.libs/autopicker_mpi.o src/.libs/ctffind_runner_mpi.o src/.libs/particle_polisher_mpi.o src/.libs/particle_sorter_mpi.o src/.libs/preprocessing_mpi.o src/.libs/ml_optimiser_mpi.o src/.libs/displayer.o src/.libs/gui_entries.o src/.libs/gui_jobwindow.o src/.libs/gui_mainwindow.o src/.libs/manualpicker.o -lfltk -lX11 -lfftw3_threads -lfftw3 -L/usr/lib/gcc/i686-linux-gnu/8 -L/usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu -L/usr/lib/gcc/i686-linux-gnu/8/../../../../lib -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/8/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-linux-gnu/8/crtendS.o /usr/lib/gcc/i686-linux-gnu/8/../../../i386-linux-gnu/crtn.o -g -O2 -fstack-protector-strong -Wl,-soname -Wl,librelion-1.4.so.1 -o 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src/autopicker_mpi.o src/ctffind_runner_mpi.o src/particle_polisher_mpi.o src/particle_sorter_mpi.o src/preprocessing_mpi.o src/ml_optimiser_mpi.o src/displayer.o src/gui_entries.o src/gui_jobwindow.o src/gui_mainwindow.o src/manualpicker.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/librelion-1.4.a libtool: link: ( cd ".libs" && rm -f "librelion-1.4.la" && ln -s "../librelion-1.4.la" "librelion-1.4.la" ) /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o project src/apps/project.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o reconstruct src/apps/reconstruct.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o refine src/apps/refine.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o preprocess src/apps/preprocess.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o postprocess src/apps/postprocess.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o autopick src/apps/autopick.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX 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-o .libs/manualpick src/apps/manualpick.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o display src/apps/display.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o maingui src/apps/maingui.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o mask_create src/apps/mask_create.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o stack_create src/apps/stack_create.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o image_handler src/apps/image_handler.o librelion-1.4.la -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/display src/apps/display.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/stack_create src/apps/stack_create.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/mask_create src/apps/mask_create.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/maingui src/apps/maingui.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/image_handler src/apps/image_handler.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Entering directory '/build/relion-1.4+dfsg' make[3]: Entering directory '/build/relion-1.4+dfsg' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c librelion-1.4.la '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/librelion-1.4.so.1.0.4 /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so.1 || { rm -f librelion-1.4.so.1 && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so.1; }; }) libtool: install: (cd /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu && { ln -s -f librelion-1.4.so.1.0.4 librelion-1.4.so || { rm -f librelion-1.4.so && ln -s librelion-1.4.so.1.0.4 librelion-1.4.so; }; }) libtool: install: /usr/bin/install -c .libs/librelion-1.4.lai /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu/librelion-1.4.la libtool: install: /usr/bin/install -c .libs/librelion-1.4.a /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: chmod 644 /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: install: ranlib /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu/librelion-1.4.a libtool: warning: remember to run 'libtool --finish /usr/lib/i386-linux-gnu' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin' /bin/bash ./libtool --mode=install /usr/bin/install -c project '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_project' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/project /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_project /bin/bash ./libtool --mode=install /usr/bin/install -c reconstruct '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_reconstruct' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/reconstruct /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_reconstruct /bin/bash ./libtool --mode=install /usr/bin/install -c refine '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_refine' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/refine /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_refine /bin/bash ./libtool --mode=install /usr/bin/install -c preprocess '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_preprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/preprocess /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_preprocess /bin/bash ./libtool --mode=install /usr/bin/install -c postprocess '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_postprocess' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/postprocess /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_postprocess /bin/bash ./libtool --mode=install /usr/bin/install -c autopick '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_autopick' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/autopick /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_autopick /bin/bash ./libtool --mode=install /usr/bin/install -c particle_polish '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_polish' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_polish /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_polish /bin/bash ./libtool --mode=install /usr/bin/install -c particle_sort '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_sort' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_sort /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_sort /bin/bash ./libtool --mode=install /usr/bin/install -c run_ctffind '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_run_ctffind' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/run_ctffind /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_run_ctffind /bin/bash ./libtool --mode=install /usr/bin/install -c star_compare '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_compare' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/star_compare /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_compare /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_tiltpair_plot /bin/bash ./libtool --mode=install /usr/bin/install -c refine_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_refine_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/refine_mpi /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_refine_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c preprocess_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_preprocess_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/preprocess_mpi /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_preprocess_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c autopick_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_autopick_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/autopick_mpi /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_autopick_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c particle_polish_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_polish_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_polish_mpi /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_polish_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c particle_sort_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_sort_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/particle_sort_mpi /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_particle_sort_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c run_ctffind_mpi '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_run_ctffind_mpi' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/run_ctffind_mpi /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_run_ctffind_mpi /bin/bash ./libtool --mode=install /usr/bin/install -c manualpick '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_manualpick' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/manualpick /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_manualpick /bin/bash ./libtool --mode=install /usr/bin/install -c display '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_display' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/display /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_display /bin/bash ./libtool --mode=install /usr/bin/install -c maingui '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_maingui' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/maingui /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_maingui /bin/bash ./libtool --mode=install /usr/bin/install -c mask_create '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_mask_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/mask_create /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_mask_create /bin/bash ./libtool --mode=install /usr/bin/install -c stack_create '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_stack_create' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/stack_create /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_stack_create /bin/bash ./libtool --mode=install /usr/bin/install -c image_handler '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_image_handler' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/image_handler /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_image_handler /bin/bash ./libtool --mode=install /usr/bin/install -c find_tiltpairs '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_find_tiltpairs' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/find_tiltpairs /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_find_tiltpairs /bin/bash ./libtool --mode=install /usr/bin/install -c tiltpair_plot '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_tiltpair_plot' libtool: warning: 'librelion-1.4.la' has not been installed in '/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/tiltpair_plot /build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_tiltpair_plot /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin' /usr/bin/install -c scripts/star_datablock_ctfdat '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_datablock_ctfdat' /usr/bin/install -c scripts/star_datablock_stack '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_datablock_stack' /usr/bin/install -c scripts/star_datablock_singlefiles '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_datablock_singlefiles' /usr/bin/install -c scripts/star_loopheader '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_loopheader' /usr/bin/install -c scripts/star_plottable '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_plottable' /usr/bin/install -c scripts/star_printtable '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_star_printtable' /usr/bin/install -c scripts/qsub.csh '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/bin/./relion_qsub.csh' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/args.h src/assembly.h src/autopicker.h src/backprojector.h src/complex.h src/ctf.h src/ctffind_runner.h src/displayer.h src/error.h src/euler.h src/exp_model.h src/fftw.h src/filename.h src/funcs.h src/gcc_version.h src/gui_entries.h src/gui_jobwindow.h src/gui_mainwindow.h src/healpix_sampling.h src/image.h src/macros.h src/mask.h src/matrix1d.h src/matrix2d.h src/memory.h src/metadata_container.h src/metadata_label.h src/metadata_table.h src/ml_model.h src/ml_optimiser.h src/multidim_array.h src/numerical_recipes.h src/parallel.h src/particle_polisher.h src/particle_sorter.h src/postprocessing.h src/preprocessing.h src/projector.h src/rwIMAGIC.h src/rwMRC.h '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4/src' /usr/bin/install -c -m 644 src/rwSPIDER.h src/strings.h src/symmetries.h src/tabfuncs.h src/time.h src/transformations.h src/mpi.h src/autopicker_mpi.h src/ctffind_runner_mpi.h src/particle_polisher_mpi.h src/particle_sorter_mpi.h src/preprocessing_mpi.h src/ml_optimiser_mpi.h src/displayer.h src/gui_entries.h src/gui_jobwindow.h src/gui_mainwindow.h src/manualpicker.h '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4/src' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 src/Healpix_2.15a/arr.h src/Healpix_2.15a/cxxutils.h src/Healpix_2.15a/datatypes.h src/Healpix_2.15a/geom_utils.h src/Healpix_2.15a/lsconstants.h src/Healpix_2.15a/message_error.h src/Healpix_2.15a/openmp_support.h src/Healpix_2.15a/pointing.h src/Healpix_2.15a/vec3.h src/Healpix_2.15a/healpix_base.h '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4/src/Healpix_2.15a' /usr/bin/install -c -m 644 relion.h '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/include/relion-1.4/.' /bin/mkdir -p '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 relion-1.4.pc '/build/relion-1.4+dfsg/debian/tmp/mpi+gui/usr/lib/i386-linux-gnu/pkgconfig' make[3]: Leaving directory '/build/relion-1.4+dfsg' make[2]: Leaving directory '/build/relion-1.4+dfsg' make clean make[2]: Entering directory '/build/relion-1.4+dfsg' rm -f project reconstruct refine preprocess postprocess autopick particle_polish particle_sort run_ctffind star_compare find_tiltpairs tiltpair_plot refine_mpi preprocess_mpi autopick_mpi particle_polish_mpi particle_sort_mpi run_ctffind_mpi manualpick display maingui mask_create stack_create image_handler find_tiltpairs tiltpair_plot test -z "librelion-1.4.la" || rm -f librelion-1.4.la rm -f ./so_locations rm -rf .libs _libs rm -rf src/.libs src/_libs rm -rf src/Healpix_2.15a/.libs src/Healpix_2.15a/_libs rm -f *.o rm -f src/*.o rm -f src/*.lo rm -f src/Healpix_2.15a/*.o rm -f src/Healpix_2.15a/*.lo rm -f src/apps/*.o rm -f *.lo make[2]: Leaving directory '/build/relion-1.4+dfsg' # clear dependency_libs field in *.la files # see lintian non-empty-dependency_libs-in-la-file for reference sed -i "/dependency_libs/ s/'.*'/''/" $(find debian/tmp/ -name '*.la') make[1]: Leaving directory '/build/relion-1.4+dfsg' dh_auto_test make -j10 check VERBOSE=1 make[1]: Entering directory '/build/relion-1.4+dfsg' mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/project.o src/apps/project.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/args.lo src/args.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/assembly.lo src/assembly.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker.lo src/autopicker.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/backprojector.lo src/backprojector.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/complex.lo src/complex.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctf.lo src/ctf.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner.lo src/ctffind_runner.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/error.lo src/error.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/euler.lo src/euler.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -fPIC -DPIC -o src/.libs/backprojector.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -fPIC -DPIC -o src/.libs/complex.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -fPIC -DPIC -o src/.libs/args.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -fPIC -DPIC -o src/.libs/error.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -fPIC -DPIC -o src/.libs/assembly.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -fPIC -DPIC -o src/.libs/euler.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -fPIC -DPIC -o src/.libs/autopicker.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -fPIC -DPIC -o src/.libs/ctffind_runner.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -fPIC -DPIC -o src/.libs/ctf.o src/args.cpp: In member function 'IOParser& IOParser::operator=(const IOParser&)': src/args.cpp:104:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/assembly.cpp: In member function 'void Assembly::writePDB(std::__cxx11::string)': src/assembly.cpp:355:19: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=] fprintf(file, "ATOM %5d %-4s %3s %1c%4d %8.3f%8.3f%8.3f%6.2f%6.2f %4s\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atomnum, molecules[imol].residues[ires].atoms[iatom].name.c_str(), molecules[imol].residues[ires].name.c_str(), ~~~~~~~ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/complex.cpp -o src/complex.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/error.cpp -o src/error.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/exp_model.lo src/exp_model.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/fftw.lo src/fftw.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -fPIC -DPIC -o src/.libs/fftw.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -fPIC -DPIC -o src/.libs/exp_model.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/euler.cpp -o src/euler.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctf.cpp -o src/ctf.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/args.cpp -o src/args.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/filename.lo src/filename.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -fPIC -DPIC -o src/.libs/filename.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/funcs.lo src/funcs.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -fPIC -DPIC -o src/.libs/funcs.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/backprojector.cpp -o src/backprojector.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/healpix_sampling.lo src/healpix_sampling.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -fPIC -DPIC -o src/.libs/healpix_sampling.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/funcs.cpp -o src/funcs.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/assembly.cpp -o src/assembly.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/filename.cpp -o src/filename.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/fftw.cpp -o src/fftw.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/image.lo src/image.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -fPIC -DPIC -o src/.libs/image.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner.cpp -o src/ctffind_runner.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mask.lo src/mask.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -fPIC -DPIC -o src/.libs/mask.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix1d.lo src/matrix1d.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -fPIC -DPIC -o src/.libs/matrix1d.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix1d.cpp -o src/matrix1d.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/matrix2d.lo src/matrix2d.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -fPIC -DPIC -o src/.libs/matrix2d.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/image.cpp -o src/image.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/exp_model.cpp -o src/exp_model.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mask.cpp -o src/mask.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker.cpp -o src/autopicker.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/memory.lo src/memory.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/memory.cpp -fPIC -DPIC -o src/.libs/memory.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/matrix2d.cpp -o src/matrix2d.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_container.lo src/metadata_container.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_container.cpp -fPIC -DPIC -o src/.libs/metadata_container.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/memory.cpp -o src/memory.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_label.lo src/metadata_label.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -fPIC -DPIC -o src/.libs/metadata_label.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/metadata_table.lo src/metadata_table.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_model.lo src/ml_model.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_optimiser.lo src/ml_optimiser.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -fPIC -DPIC -o src/.libs/metadata_table.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -fPIC -DPIC -o src/.libs/ml_model.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -fPIC -DPIC -o src/.libs/ml_optimiser.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/multidim_array.lo src/multidim_array.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -fPIC -DPIC -o src/.libs/multidim_array.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/healpix_sampling.cpp -o src/healpix_sampling.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/multidim_array.cpp -o src/multidim_array.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_container.cpp -o src/metadata_container.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/numerical_recipes.lo src/numerical_recipes.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -fPIC -DPIC -o src/.libs/numerical_recipes.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/parallel.lo src/parallel.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/numerical_recipes.cpp -o src/numerical_recipes.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -fPIC -DPIC -o src/.libs/parallel.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_polisher.lo src/particle_polisher.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -fPIC -DPIC -o src/.libs/particle_polisher.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_table.cpp -o src/metadata_table.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/parallel.cpp -o src/parallel.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter.lo src/particle_sorter.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/postprocessing.lo src/postprocessing.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -fPIC -DPIC -o src/.libs/particle_sorter.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -fPIC -DPIC -o src/.libs/postprocessing.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing.lo src/preprocessing.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -fPIC -DPIC -o src/.libs/preprocessing.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/projector.lo src/projector.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -fPIC -DPIC -o src/.libs/projector.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/strings.lo src/strings.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -fPIC -DPIC -o src/.libs/strings.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/symmetries.lo src/symmetries.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -fPIC -DPIC -o src/.libs/symmetries.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/strings.cpp -o src/strings.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/tabfuncs.lo src/tabfuncs.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter.cpp -o src/particle_sorter.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_model.cpp -o src/ml_model.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -fPIC -DPIC -o src/.libs/tabfuncs.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/projector.cpp -o src/projector.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/tabfuncs.cpp -o src/tabfuncs.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/postprocessing.cpp -o src/postprocessing.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/symmetries.cpp -o src/symmetries.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/time.lo src/time.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -fPIC -DPIC -o src/.libs/time.o src/time.cpp: In member function 'int Timer::toc(int)': src/time.cpp:223:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/time.cpp -o src/time.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing.cpp -o src/preprocessing.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/transformations.lo src/transformations.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -fPIC -DPIC -o src/.libs/transformations.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/cxxutils.lo src/Healpix_2.15a/cxxutils.cc libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher.cpp -o src/particle_polisher.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/cxxutils.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/transformations.cpp -o src/transformations.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/Healpix_2.15a/healpix_base.lo src/Healpix_2.15a/healpix_base.cc libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -fPIC -DPIC -o src/Healpix_2.15a/.libs/healpix_base.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mpi.lo src/mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mpi.cpp -fPIC -DPIC -o src/.libs/mpi.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/autopicker_mpi.lo src/autopicker_mpi.cpp src/mpi.cpp: In constructor 'MpiNode::MpiNode(int&, char**)': src/mpi.cpp:56:57: warning: 'int MPI_Errhandler_set(MPI_Comm, MPI_Errhandler)' is deprecated: MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0 [-Wdeprecated-declarations] MPI_Errhandler_set(MPI_COMM_WORLD, MPI_ERRORS_RETURN); ^ In file included from ./src/mpi.h:47, from src/mpi.cpp:46: /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:1338:20: note: declared here OMPI_DECLSPEC int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) ^~~~~~~~~~~~~~~~~~ src/mpi.cpp:56:57: warning: 'int MPI_Errhandler_set(MPI_Comm, MPI_Errhandler)' is deprecated: MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0 [-Wdeprecated-declarations] MPI_Errhandler_set(MPI_COMM_WORLD, MPI_ERRORS_RETURN); ^ In file included from ./src/mpi.h:47, from src/mpi.cpp:46: /usr/lib/i386-linux-gnu/openmpi/include/mpi.h:1338:20: note: declared here OMPI_DECLSPEC int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) ^~~~~~~~~~~~~~~~~~ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker_mpi.cpp -fPIC -DPIC -o src/.libs/autopicker_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/healpix_base.cc -o src/Healpix_2.15a/healpix_base.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/mpi.cpp -o src/mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ctffind_runner_mpi.lo src/ctffind_runner_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner_mpi.cpp -fPIC -DPIC -o src/.libs/ctffind_runner_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/Healpix_2.15a/cxxutils.cc -o src/Healpix_2.15a/cxxutils.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_polisher_mpi.lo src/particle_polisher_mpi.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/particle_sorter_mpi.lo src/particle_sorter_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher_mpi.cpp -fPIC -DPIC -o src/.libs/particle_polisher_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter_mpi.cpp -fPIC -DPIC -o src/.libs/particle_sorter_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/autopicker_mpi.cpp -o src/autopicker_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/preprocessing_mpi.lo src/preprocessing_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing_mpi.cpp -fPIC -DPIC -o src/.libs/preprocessing_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ctffind_runner_mpi.cpp -o src/ctffind_runner_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/ml_optimiser_mpi.lo src/ml_optimiser_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_sorter_mpi.cpp -o src/particle_sorter_mpi.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser_mpi.cpp -fPIC -DPIC -o src/.libs/ml_optimiser_mpi.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/preprocessing_mpi.cpp -o src/preprocessing_mpi.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/displayer.lo src/displayer.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/displayer.cpp -fPIC -DPIC -o src/.libs/displayer.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_entries.lo src/gui_entries.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_entries.cpp -fPIC -DPIC -o src/.libs/gui_entries.o /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_jobwindow.lo src/gui_jobwindow.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_jobwindow.cpp -fPIC -DPIC -o src/.libs/gui_jobwindow.o In file included from src/displayer.cpp:21: ./src/displayer.h: In member function 'int popupInputWindow::fill(std::__cxx11::string, double&)': ./src/displayer.h:327:2: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/displayer.cpp: In member function 'int basisViewerCanvas::fill(MetaDataTable&, EMDLabel, bool, double, double, double, double, int)': src/displayer.cpp:412:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ src/displayer.cpp: In member function 'int basisViewerCanvas::fill(MultidimArray&, double, double, double, double)': src/displayer.cpp:429:1: warning: no return statement in function returning non-void [-Wreturn-type] } ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/metadata_label.cpp -o src/metadata_label.o >/dev/null 2>&1 src/displayer.cpp: In member function 'int basisViewerWindow::fillCanvas(int, MetaDataTable&, EMDLabel, bool, bool, double, double, double, double, double, int, bool, MetaDataTable*, int, bool, MetaDataTable*)': src/displayer.cpp:170:36: warning: control reaches end of non-void function [-Wreturn-type] Fl_Scroll scroll(0, 0, w(), h()); ^ src/displayer.cpp: In member function 'int Displayer::runGui()': src/displayer.cpp:1783:53: warning: control reaches end of non-void function [-Wreturn-type] "Choose file to display"); // title ^ src/displayer.cpp: In member function 'int Displayer::run()': src/displayer.cpp:1967:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_entries.cpp -o src/gui_entries.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/gui_mainwindow.lo src/gui_mainwindow.cpp /bin/bash ./libtool --tag=CXX --mode=compile mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/manualpicker.lo src/manualpicker.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_mainwindow.cpp -fPIC -DPIC -o src/.libs/gui_mainwindow.o libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/manualpicker.cpp -fPIC -DPIC -o src/.libs/manualpicker.o mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/reconstruct.o src/apps/reconstruct.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/particle_polisher_mpi.cpp -o src/particle_polisher_mpi.o >/dev/null 2>&1 libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_mainwindow.cpp -o src/gui_mainwindow.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine.o src/apps/refine.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess.o src/apps/preprocess.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser.cpp -o src/ml_optimiser.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/postprocess.o src/apps/postprocess.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/manualpicker.cpp -o src/manualpicker.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick.o src/apps/autopick.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish.o src/apps/particle_polish.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/ml_optimiser_mpi.cpp -o src/ml_optimiser_mpi.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort.o src/apps/particle_sort.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind.o src/apps/run_ctffind.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/star_compare.o src/apps/star_compare.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/find_tiltpairs.o src/apps/find_tiltpairs.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/displayer.cpp -o src/displayer.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/tiltpair_plot.o src/apps/tiltpair_plot.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/refine_mpi.o src/apps/refine_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/preprocess_mpi.o src/apps/preprocess_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/autopick_mpi.o src/apps/autopick_mpi.cpp libtool: compile: mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c src/gui_jobwindow.cpp -o src/gui_jobwindow.o >/dev/null 2>&1 mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_polish_mpi.o src/apps/particle_polish_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/particle_sort_mpi.o src/apps/particle_sort_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/run_ctffind_mpi.o src/apps/run_ctffind_mpi.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/manualpick.o src/apps/manualpick.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/display.o src/apps/display.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/maingui.o src/apps/maingui.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -fpic -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/apps/mask_create.o src/apps/mask_create.cpp mpicxx.openmpi -DHAVE_CONFIG_H -I. -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 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src/apps/image_handler.o src/apps/image_handler.cpp In file included from src/apps/display.cpp:31: ./src/displayer.h: In member function 'int popupInputWindow::fill(std::__cxx11::string, double&)': ./src/displayer.h:327:2: warning: no return statement in function returning non-void [-Wreturn-type] } ^ /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 1:4:0 -lfltk -lX11 -o librelion-1.4.la -rpath /usr/lib/i386-linux-gnu src/args.lo src/assembly.lo src/autopicker.lo src/backprojector.lo src/complex.lo src/ctf.lo src/ctffind_runner.lo src/error.lo src/euler.lo src/exp_model.lo src/fftw.lo src/filename.lo src/funcs.lo src/healpix_sampling.lo src/image.lo src/mask.lo src/matrix1d.lo src/matrix2d.lo src/memory.lo src/metadata_container.lo src/metadata_label.lo src/metadata_table.lo src/ml_model.lo src/ml_optimiser.lo src/multidim_array.lo src/numerical_recipes.lo 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src/mask.o src/matrix1d.o src/matrix2d.o src/memory.o src/metadata_container.o src/metadata_label.o src/metadata_table.o src/ml_model.o src/ml_optimiser.o src/multidim_array.o src/numerical_recipes.o src/parallel.o src/particle_polisher.o src/particle_sorter.o src/postprocessing.o src/preprocessing.o src/projector.o src/strings.o src/symmetries.o src/tabfuncs.o src/time.o src/transformations.o src/Healpix_2.15a/cxxutils.o src/Healpix_2.15a/healpix_base.o src/mpi.o src/autopicker_mpi.o src/ctffind_runner_mpi.o src/particle_polisher_mpi.o src/particle_sorter_mpi.o src/preprocessing_mpi.o src/ml_optimiser_mpi.o src/displayer.o src/gui_entries.o src/gui_jobwindow.o src/gui_mainwindow.o src/manualpicker.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/librelion-1.4.a libtool: link: ( cd ".libs" && rm -f "librelion-1.4.la" && ln -s "../librelion-1.4.la" "librelion-1.4.la" ) /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 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src/apps/particle_sort_mpi.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/tiltpair_plot src/apps/tiltpair_plot.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/preprocess_mpi src/apps/preprocess_mpi.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/autopick_mpi src/apps/autopick_mpi.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/run_ctffind_mpi src/apps/run_ctffind_mpi.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/refine_mpi src/apps/refine_mpi.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/particle_polish_mpi src/apps/particle_polish_mpi.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/manualpick src/apps/manualpick.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/display src/apps/display.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o maingui src/apps/maingui.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o mask_create src/apps/mask_create.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o stack_create src/apps/stack_create.o librelion-1.4.la -lfftw3_threads -lfftw3 /bin/bash ./libtool --tag=CXX --mode=link mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lfltk -lX11 -o image_handler src/apps/image_handler.o librelion-1.4.la -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/maingui src/apps/maingui.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/mask_create src/apps/mask_create.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/stack_create src/apps/stack_create.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 libtool: link: mpicxx.openmpi -g -O2 -ffile-prefix-map=/build/relion-1.4+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -o .libs/image_handler src/apps/image_handler.o -lfltk -lX11 ./.libs/librelion-1.4.so -lfftw3_threads -lfftw3 make[1]: Leaving directory '/build/relion-1.4+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary Relion API Version = 1.4 Relion most recent (current) lib interface = 1 dh binary dh_testroot debian/rules override_dh_prep make[1]: Entering directory '/build/relion-1.4+dfsg' Relion API Version = 1.4 Relion most recent (current) lib interface = 1 # We don't want debian/tmp to be removed again ... dh_prep -X debian/tmp make[1]: Leaving directory '/build/relion-1.4+dfsg' debian/rules override_dh_install-arch make[1]: Entering directory '/build/relion-1.4+dfsg' Relion API Version = 1.4 Relion most recent (current) lib interface = 1 dh_install -a # relion_qsub.csh should just go to GUI d/examples find debian/relion-bi*/usr/bin -name relion_qsub.csh -delete make[1]: Leaving directory '/build/relion-1.4+dfsg' dh_install -Nrelion-bin -Nrelion-bin\+mpi -Nrelion-bin\+gui -Nrelion-bin\+mpi\+gui -Nlibrelion-dev -Nlibrelion\+mpi-dev -Nlibrelion\+gui-dev -Nlibrelion\+mpi\+gui-dev -Nlibrelion-1.4-1 -Nlibrelion\+mpi-1.4-1 -Nlibrelion\+gui-1.4-1 -Nlibrelion\+mpi\+gui-1.4-1 dh_installdocs dh_installchangelogs dh_installexamples dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs debian/rules override_dh_shlibdeps make[1]: Entering directory '/build/relion-1.4+dfsg' Relion API Version = 1.4 Relion most recent (current) lib interface = 1 # First for all packages apart from relion-bin* dh_shlibdeps -- -xrelion-bin -xrelion-bin+mpi -xrelion-bin+gui -xrelion-bin+mpi+gui dpkg-shlibdeps: warning: symbol pthread_join used by debian/librelion-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol pthread_create used by debian/librelion-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Type_create_darray used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Type_dup used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Pack used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Type_delete_attr used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Info_set used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Comm_set_attr used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Group_rank used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Scatter used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Win_set_attr used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Comm_dup used by debian/librelion+mpi-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: 165 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: symbol MPI_Recv used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol _ZN3MPI4CommC2Ev used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Init used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Scan used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Type_get_extent used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Test used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol ompi_mpi_long used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Type_size used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Comm_rank used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol MPI_Send_init used by debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: 165 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/librelion+mpi+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 was not linked against libX11.so.6 (it uses none of the library's symbols) dpkg-shlibdeps: warning: debian/relion-bin+gui/usr/bin/relion_manualpick contains an unresolvable reference to symbol _ZN12ManualPicker10initialiseEv: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/relion-bin+gui/usr/bin/relion_maingui contains an unresolvable reference to symbol _ZN16RelionMainWindowC1EiiPKc: it's probably a plugin dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin/usr/bin/relion_tiltpair_plot debian/relion-bin/usr/bin/relion_reconstruct debian/relion-bin/usr/bin/relion_find_tiltpairs debian/relion-bin/usr/bin/relion_refine debian/relion-bin/usr/bin/relion_postprocess debian/relion-bin/usr/bin/relion_project debian/relion-bin/usr/bin/relion_mask_create debian/relion-bin/usr/bin/relion_particle_sort debian/relion-bin/usr/bin/relion_star_compare debian/relion-bin/usr/bin/relion_preprocess debian/relion-bin/usr/bin/relion_stack_create debian/relion-bin/usr/bin/relion_run_ctffind debian/relion-bin/usr/bin/relion_autopick debian/relion-bin/usr/bin/relion_particle_polish debian/relion-bin/usr/bin/relion_image_handler were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin/usr/bin/relion_tiltpair_plot debian/relion-bin/usr/bin/relion_reconstruct debian/relion-bin/usr/bin/relion_find_tiltpairs debian/relion-bin/usr/bin/relion_refine debian/relion-bin/usr/bin/relion_postprocess debian/relion-bin/usr/bin/relion_project debian/relion-bin/usr/bin/relion_mask_create debian/relion-bin/usr/bin/relion_particle_sort debian/relion-bin/usr/bin/relion_star_compare debian/relion-bin/usr/bin/relion_preprocess debian/relion-bin/usr/bin/relion_stack_create debian/relion-bin/usr/bin/relion_run_ctffind debian/relion-bin/usr/bin/relion_autopick debian/relion-bin/usr/bin/relion_particle_polish debian/relion-bin/usr/bin/relion_image_handler were not linked against libfftw3.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: debian/relion-bin+gui/usr/bin/relion_display contains an unresolvable reference to symbol _ZN9Displayer6runGuiEv: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+gui/usr/bin/relion_manualpick debian/relion-bin+gui/usr/bin/relion_maingui debian/relion-bin+gui/usr/bin/relion_mask_create debian/relion-bin+gui/usr/bin/relion_stack_create debian/relion-bin+gui/usr/bin/relion_run_ctffind debian/relion-bin+gui/usr/bin/relion_autopick debian/relion-bin+gui/usr/bin/relion_image_handler debian/relion-bin+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+gui/usr/bin/relion_project debian/relion-bin+gui/usr/bin/relion_particle_sort debian/relion-bin+gui/usr/bin/relion_refine debian/relion-bin+gui/usr/bin/relion_postprocess debian/relion-bin+gui/usr/bin/relion_preprocess debian/relion-bin+gui/usr/bin/relion_display debian/relion-bin+gui/usr/bin/relion_particle_polish debian/relion-bin+gui/usr/bin/relion_reconstruct debian/relion-bin+gui/usr/bin/relion_star_compare were not linked against libX11.so.6 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+gui/usr/bin/relion_manualpick debian/relion-bin+gui/usr/bin/relion_maingui debian/relion-bin+gui/usr/bin/relion_mask_create debian/relion-bin+gui/usr/bin/relion_stack_create debian/relion-bin+gui/usr/bin/relion_run_ctffind debian/relion-bin+gui/usr/bin/relion_autopick debian/relion-bin+gui/usr/bin/relion_image_handler debian/relion-bin+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+gui/usr/bin/relion_project debian/relion-bin+gui/usr/bin/relion_particle_sort debian/relion-bin+gui/usr/bin/relion_refine debian/relion-bin+gui/usr/bin/relion_postprocess debian/relion-bin+gui/usr/bin/relion_preprocess debian/relion-bin+gui/usr/bin/relion_display debian/relion-bin+gui/usr/bin/relion_particle_polish debian/relion-bin+gui/usr/bin/relion_reconstruct debian/relion-bin+gui/usr/bin/relion_star_compare were not linked against libfftw3.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+gui/usr/bin/relion_manualpick debian/relion-bin+gui/usr/bin/relion_maingui debian/relion-bin+gui/usr/bin/relion_mask_create debian/relion-bin+gui/usr/bin/relion_stack_create debian/relion-bin+gui/usr/bin/relion_run_ctffind debian/relion-bin+gui/usr/bin/relion_autopick debian/relion-bin+gui/usr/bin/relion_image_handler debian/relion-bin+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+gui/usr/bin/relion_project debian/relion-bin+gui/usr/bin/relion_particle_sort debian/relion-bin+gui/usr/bin/relion_refine debian/relion-bin+gui/usr/bin/relion_postprocess debian/relion-bin+gui/usr/bin/relion_preprocess debian/relion-bin+gui/usr/bin/relion_display debian/relion-bin+gui/usr/bin/relion_particle_polish debian/relion-bin+gui/usr/bin/relion_reconstruct debian/relion-bin+gui/usr/bin/relion_star_compare were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: symbol pthread_join used by debian/librelion+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: symbol pthread_create used by debian/librelion+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 found in none of the libraries dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/librelion+gui-1.4-1/usr/lib/i386-linux-gnu/librelion-1.4.so.1.0.4 was not linked against libX11.so.6 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi/usr/bin/relion_run_ctffind debian/relion-bin+mpi/usr/bin/relion_reconstruct debian/relion-bin+mpi/usr/bin/relion_postprocess debian/relion-bin+mpi/usr/bin/relion_stack_create debian/relion-bin+mpi/usr/bin/relion_refine_mpi debian/relion-bin+mpi/usr/bin/relion_autopick_mpi debian/relion-bin+mpi/usr/bin/relion_refine debian/relion-bin+mpi/usr/bin/relion_project debian/relion-bin+mpi/usr/bin/relion_mask_create debian/relion-bin+mpi/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi/usr/bin/relion_particle_sort debian/relion-bin+mpi/usr/bin/relion_image_handler debian/relion-bin+mpi/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi/usr/bin/relion_autopick debian/relion-bin+mpi/usr/bin/relion_preprocess debian/relion-bin+mpi/usr/bin/relion_star_compare debian/relion-bin+mpi/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi/usr/bin/relion_particle_polish debian/relion-bin+mpi/usr/bin/relion_run_ctffind_mpi were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi/usr/bin/relion_run_ctffind debian/relion-bin+mpi/usr/bin/relion_reconstruct debian/relion-bin+mpi/usr/bin/relion_postprocess debian/relion-bin+mpi/usr/bin/relion_stack_create debian/relion-bin+mpi/usr/bin/relion_refine_mpi debian/relion-bin+mpi/usr/bin/relion_autopick_mpi debian/relion-bin+mpi/usr/bin/relion_refine debian/relion-bin+mpi/usr/bin/relion_project debian/relion-bin+mpi/usr/bin/relion_mask_create debian/relion-bin+mpi/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi/usr/bin/relion_particle_sort debian/relion-bin+mpi/usr/bin/relion_image_handler debian/relion-bin+mpi/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi/usr/bin/relion_autopick debian/relion-bin+mpi/usr/bin/relion_preprocess debian/relion-bin+mpi/usr/bin/relion_star_compare debian/relion-bin+mpi/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi/usr/bin/relion_particle_polish debian/relion-bin+mpi/usr/bin/relion_run_ctffind_mpi were not linked against libfftw3.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind debian/relion-bin+mpi+gui/usr/bin/relion_preprocess debian/relion-bin+mpi+gui/usr/bin/relion_refine_mpi debian/relion-bin+mpi+gui/usr/bin/relion_postprocess debian/relion-bin+mpi+gui/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi+gui/usr/bin/relion_display debian/relion-bin+mpi+gui/usr/bin/relion_autopick debian/relion-bin+mpi+gui/usr/bin/relion_reconstruct debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi+gui/usr/bin/relion_manualpick debian/relion-bin+mpi+gui/usr/bin/relion_project debian/relion-bin+mpi+gui/usr/bin/relion_maingui debian/relion-bin+mpi+gui/usr/bin/relion_stack_create debian/relion-bin+mpi+gui/usr/bin/relion_refine debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort debian/relion-bin+mpi+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind_mpi debian/relion-bin+mpi+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi+gui/usr/bin/relion_autopick_mpi debian/relion-bin+mpi+gui/usr/bin/relion_star_compare debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish debian/relion-bin+mpi+gui/usr/bin/relion_image_handler debian/relion-bin+mpi+gui/usr/bin/relion_mask_create were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind debian/relion-bin+mpi+gui/usr/bin/relion_preprocess debian/relion-bin+mpi+gui/usr/bin/relion_refine_mpi debian/relion-bin+mpi+gui/usr/bin/relion_postprocess debian/relion-bin+mpi+gui/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi+gui/usr/bin/relion_display debian/relion-bin+mpi+gui/usr/bin/relion_autopick debian/relion-bin+mpi+gui/usr/bin/relion_reconstruct debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi+gui/usr/bin/relion_manualpick debian/relion-bin+mpi+gui/usr/bin/relion_project debian/relion-bin+mpi+gui/usr/bin/relion_maingui debian/relion-bin+mpi+gui/usr/bin/relion_stack_create debian/relion-bin+mpi+gui/usr/bin/relion_refine debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort debian/relion-bin+mpi+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind_mpi debian/relion-bin+mpi+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi+gui/usr/bin/relion_autopick_mpi debian/relion-bin+mpi+gui/usr/bin/relion_star_compare debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish debian/relion-bin+mpi+gui/usr/bin/relion_image_handler debian/relion-bin+mpi+gui/usr/bin/relion_mask_create were not linked against libfftw3.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind debian/relion-bin+mpi+gui/usr/bin/relion_preprocess debian/relion-bin+mpi+gui/usr/bin/relion_refine_mpi debian/relion-bin+mpi+gui/usr/bin/relion_postprocess debian/relion-bin+mpi+gui/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi+gui/usr/bin/relion_display debian/relion-bin+mpi+gui/usr/bin/relion_autopick debian/relion-bin+mpi+gui/usr/bin/relion_reconstruct debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi+gui/usr/bin/relion_manualpick debian/relion-bin+mpi+gui/usr/bin/relion_project debian/relion-bin+mpi+gui/usr/bin/relion_maingui debian/relion-bin+mpi+gui/usr/bin/relion_stack_create debian/relion-bin+mpi+gui/usr/bin/relion_refine debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort debian/relion-bin+mpi+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind_mpi debian/relion-bin+mpi+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi+gui/usr/bin/relion_autopick_mpi debian/relion-bin+mpi+gui/usr/bin/relion_star_compare debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish debian/relion-bin+mpi+gui/usr/bin/relion_image_handler debian/relion-bin+mpi+gui/usr/bin/relion_mask_create were not linked against libX11.so.6 (they use none of the library's symbols) # Now for the relion-bin* packages for pkg in relion-bin relion-bin+mpi relion-bin+gui relion-bin+mpi+gui ; do \ echo -e "\n-- Info: Run dpkg-shlibdeps for $pkg --\n"; \ dpkg-shlibdeps -e debian/${pkg}/usr/bin/relion_* \ -Sdebian/librelion${pkg#relion-bin}-1.4-1 \ -Tdebian/${pkg}.substvars; \ done -e -- Info: Run dpkg-shlibdeps for relion-bin -- dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin/usr/bin/relion_star_datablock_stack' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin/usr/bin/relion_star_loopheader' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin/usr/bin/relion_star_datablock_ctfdat' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin/usr/bin/relion_star_printtable' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin/usr/bin/relion_star_datablock_singlefiles' dpkg-shlibdeps: warning: binaries to analyze should already be installed in their package's directory dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin/usr/bin/relion_star_plottable' dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin/usr/bin/relion_project debian/relion-bin/usr/bin/relion_particle_sort debian/relion-bin/usr/bin/relion_postprocess debian/relion-bin/usr/bin/relion_preprocess debian/relion-bin/usr/bin/relion_tiltpair_plot debian/relion-bin/usr/bin/relion_star_compare debian/relion-bin/usr/bin/relion_mask_create debian/relion-bin/usr/bin/relion_reconstruct debian/relion-bin/usr/bin/relion_stack_create debian/relion-bin/usr/bin/relion_refine debian/relion-bin/usr/bin/relion_autopick debian/relion-bin/usr/bin/relion_particle_polish debian/relion-bin/usr/bin/relion_image_handler debian/relion-bin/usr/bin/relion_find_tiltpairs debian/relion-bin/usr/bin/relion_run_ctffind were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin/usr/bin/relion_project debian/relion-bin/usr/bin/relion_particle_sort debian/relion-bin/usr/bin/relion_postprocess debian/relion-bin/usr/bin/relion_preprocess debian/relion-bin/usr/bin/relion_tiltpair_plot debian/relion-bin/usr/bin/relion_star_compare debian/relion-bin/usr/bin/relion_mask_create debian/relion-bin/usr/bin/relion_reconstruct debian/relion-bin/usr/bin/relion_stack_create debian/relion-bin/usr/bin/relion_refine debian/relion-bin/usr/bin/relion_autopick debian/relion-bin/usr/bin/relion_particle_polish debian/relion-bin/usr/bin/relion_image_handler debian/relion-bin/usr/bin/relion_find_tiltpairs debian/relion-bin/usr/bin/relion_run_ctffind were not linked against libfftw3.so.3 (they use none of the library's symbols) -e -- Info: Run dpkg-shlibdeps for relion-bin+mpi -- dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi/usr/bin/relion_star_datablock_stack' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi/usr/bin/relion_star_datablock_ctfdat' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi/usr/bin/relion_star_datablock_singlefiles' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi/usr/bin/relion_star_printtable' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi/usr/bin/relion_star_loopheader' dpkg-shlibdeps: warning: binaries to analyze should already be installed in their package's directory dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi/usr/bin/relion_star_plottable' dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi/usr/bin/relion_particle_sort debian/relion-bin+mpi/usr/bin/relion_autopick debian/relion-bin+mpi/usr/bin/relion_autopick_mpi debian/relion-bin+mpi/usr/bin/relion_reconstruct debian/relion-bin+mpi/usr/bin/relion_star_compare debian/relion-bin+mpi/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi/usr/bin/relion_preprocess debian/relion-bin+mpi/usr/bin/relion_refine debian/relion-bin+mpi/usr/bin/relion_mask_create debian/relion-bin+mpi/usr/bin/relion_run_ctffind debian/relion-bin+mpi/usr/bin/relion_postprocess debian/relion-bin+mpi/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi/usr/bin/relion_particle_polish debian/relion-bin+mpi/usr/bin/relion_stack_create debian/relion-bin+mpi/usr/bin/relion_refine_mpi debian/relion-bin+mpi/usr/bin/relion_image_handler debian/relion-bin+mpi/usr/bin/relion_project debian/relion-bin+mpi/usr/bin/relion_run_ctffind_mpi were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi/usr/bin/relion_particle_sort debian/relion-bin+mpi/usr/bin/relion_autopick debian/relion-bin+mpi/usr/bin/relion_autopick_mpi debian/relion-bin+mpi/usr/bin/relion_reconstruct debian/relion-bin+mpi/usr/bin/relion_star_compare debian/relion-bin+mpi/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi/usr/bin/relion_preprocess debian/relion-bin+mpi/usr/bin/relion_refine debian/relion-bin+mpi/usr/bin/relion_mask_create debian/relion-bin+mpi/usr/bin/relion_run_ctffind debian/relion-bin+mpi/usr/bin/relion_postprocess debian/relion-bin+mpi/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi/usr/bin/relion_particle_polish debian/relion-bin+mpi/usr/bin/relion_stack_create debian/relion-bin+mpi/usr/bin/relion_refine_mpi debian/relion-bin+mpi/usr/bin/relion_image_handler debian/relion-bin+mpi/usr/bin/relion_project debian/relion-bin+mpi/usr/bin/relion_run_ctffind_mpi were not linked against libfftw3.so.3 (they use none of the library's symbols) -e -- Info: Run dpkg-shlibdeps for relion-bin+gui -- dpkg-shlibdeps: warning: binaries to analyze should already be installed in their package's directory dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+gui/usr/bin/relion_star_loopheader' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+gui/usr/bin/relion_star_datablock_ctfdat' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+gui/usr/bin/relion_star_datablock_stack' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+gui/usr/bin/relion_star_plottable' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+gui/usr/bin/relion_star_printtable' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+gui/usr/bin/relion_star_datablock_singlefiles' dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+gui/usr/bin/relion_reconstruct debian/relion-bin+gui/usr/bin/relion_image_handler debian/relion-bin+gui/usr/bin/relion_run_ctffind debian/relion-bin+gui/usr/bin/relion_particle_sort debian/relion-bin+gui/usr/bin/relion_maingui debian/relion-bin+gui/usr/bin/relion_project debian/relion-bin+gui/usr/bin/relion_stack_create debian/relion-bin+gui/usr/bin/relion_star_compare debian/relion-bin+gui/usr/bin/relion_mask_create debian/relion-bin+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+gui/usr/bin/relion_autopick debian/relion-bin+gui/usr/bin/relion_manualpick debian/relion-bin+gui/usr/bin/relion_refine debian/relion-bin+gui/usr/bin/relion_postprocess debian/relion-bin+gui/usr/bin/relion_particle_polish debian/relion-bin+gui/usr/bin/relion_display debian/relion-bin+gui/usr/bin/relion_preprocess were not linked against libfftw3.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+gui/usr/bin/relion_reconstruct debian/relion-bin+gui/usr/bin/relion_image_handler debian/relion-bin+gui/usr/bin/relion_run_ctffind debian/relion-bin+gui/usr/bin/relion_particle_sort debian/relion-bin+gui/usr/bin/relion_maingui debian/relion-bin+gui/usr/bin/relion_project debian/relion-bin+gui/usr/bin/relion_stack_create debian/relion-bin+gui/usr/bin/relion_star_compare debian/relion-bin+gui/usr/bin/relion_mask_create debian/relion-bin+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+gui/usr/bin/relion_autopick debian/relion-bin+gui/usr/bin/relion_manualpick debian/relion-bin+gui/usr/bin/relion_refine debian/relion-bin+gui/usr/bin/relion_postprocess debian/relion-bin+gui/usr/bin/relion_particle_polish debian/relion-bin+gui/usr/bin/relion_display debian/relion-bin+gui/usr/bin/relion_preprocess were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+gui/usr/bin/relion_reconstruct debian/relion-bin+gui/usr/bin/relion_image_handler debian/relion-bin+gui/usr/bin/relion_run_ctffind debian/relion-bin+gui/usr/bin/relion_particle_sort debian/relion-bin+gui/usr/bin/relion_maingui debian/relion-bin+gui/usr/bin/relion_project debian/relion-bin+gui/usr/bin/relion_stack_create debian/relion-bin+gui/usr/bin/relion_star_compare debian/relion-bin+gui/usr/bin/relion_mask_create debian/relion-bin+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+gui/usr/bin/relion_autopick debian/relion-bin+gui/usr/bin/relion_manualpick debian/relion-bin+gui/usr/bin/relion_refine debian/relion-bin+gui/usr/bin/relion_postprocess debian/relion-bin+gui/usr/bin/relion_particle_polish debian/relion-bin+gui/usr/bin/relion_display debian/relion-bin+gui/usr/bin/relion_preprocess were not linked against libX11.so.6 (they use none of the library's symbols) -e -- Info: Run dpkg-shlibdeps for relion-bin+mpi+gui -- dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi+gui/usr/bin/relion_star_datablock_ctfdat' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi+gui/usr/bin/relion_star_plottable' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi+gui/usr/bin/relion_star_loopheader' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi+gui/usr/bin/relion_star_printtable' dpkg-shlibdeps: warning: binaries to analyze should already be installed in their package's directory dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi+gui/usr/bin/relion_star_datablock_stack' dpkg-shlibdeps: warning: unknown executable format in file 'debian/relion-bin+mpi+gui/usr/bin/relion_star_datablock_singlefiles' dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi+gui/usr/bin/relion_postprocess debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish debian/relion-bin+mpi+gui/usr/bin/relion_display debian/relion-bin+mpi+gui/usr/bin/relion_autopick_mpi debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi+gui/usr/bin/relion_project debian/relion-bin+mpi+gui/usr/bin/relion_refine debian/relion-bin+mpi+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi+gui/usr/bin/relion_star_compare debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind_mpi debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi+gui/usr/bin/relion_maingui debian/relion-bin+mpi+gui/usr/bin/relion_mask_create debian/relion-bin+mpi+gui/usr/bin/relion_reconstruct debian/relion-bin+mpi+gui/usr/bin/relion_manualpick debian/relion-bin+mpi+gui/usr/bin/relion_stack_create debian/relion-bin+mpi+gui/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind debian/relion-bin+mpi+gui/usr/bin/relion_image_handler debian/relion-bin+mpi+gui/usr/bin/relion_refine_mpi debian/relion-bin+mpi+gui/usr/bin/relion_autopick debian/relion-bin+mpi+gui/usr/bin/relion_preprocess were not linked against libfftw3.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi+gui/usr/bin/relion_postprocess debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish debian/relion-bin+mpi+gui/usr/bin/relion_display debian/relion-bin+mpi+gui/usr/bin/relion_autopick_mpi debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi+gui/usr/bin/relion_project debian/relion-bin+mpi+gui/usr/bin/relion_refine debian/relion-bin+mpi+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi+gui/usr/bin/relion_star_compare debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind_mpi debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi+gui/usr/bin/relion_maingui debian/relion-bin+mpi+gui/usr/bin/relion_mask_create debian/relion-bin+mpi+gui/usr/bin/relion_reconstruct debian/relion-bin+mpi+gui/usr/bin/relion_manualpick debian/relion-bin+mpi+gui/usr/bin/relion_stack_create debian/relion-bin+mpi+gui/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind debian/relion-bin+mpi+gui/usr/bin/relion_image_handler debian/relion-bin+mpi+gui/usr/bin/relion_refine_mpi debian/relion-bin+mpi+gui/usr/bin/relion_autopick debian/relion-bin+mpi+gui/usr/bin/relion_preprocess were not linked against libX11.so.6 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/relion-bin+mpi+gui/usr/bin/relion_postprocess debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish debian/relion-bin+mpi+gui/usr/bin/relion_display debian/relion-bin+mpi+gui/usr/bin/relion_autopick_mpi debian/relion-bin+mpi+gui/usr/bin/relion_particle_sort_mpi debian/relion-bin+mpi+gui/usr/bin/relion_project debian/relion-bin+mpi+gui/usr/bin/relion_refine debian/relion-bin+mpi+gui/usr/bin/relion_tiltpair_plot debian/relion-bin+mpi+gui/usr/bin/relion_star_compare debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind_mpi debian/relion-bin+mpi+gui/usr/bin/relion_particle_polish_mpi debian/relion-bin+mpi+gui/usr/bin/relion_maingui debian/relion-bin+mpi+gui/usr/bin/relion_mask_create debian/relion-bin+mpi+gui/usr/bin/relion_reconstruct debian/relion-bin+mpi+gui/usr/bin/relion_manualpick debian/relion-bin+mpi+gui/usr/bin/relion_stack_create debian/relion-bin+mpi+gui/usr/bin/relion_preprocess_mpi debian/relion-bin+mpi+gui/usr/bin/relion_find_tiltpairs debian/relion-bin+mpi+gui/usr/bin/relion_run_ctffind debian/relion-bin+mpi+gui/usr/bin/relion_image_handler debian/relion-bin+mpi+gui/usr/bin/relion_refine_mpi debian/relion-bin+mpi+gui/usr/bin/relion_autopick debian/relion-bin+mpi+gui/usr/bin/relion_preprocess were not linked against libfftw3_threads.so.3 (they use none of the library's symbols) make[1]: Leaving directory '/build/relion-1.4+dfsg' dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'relion-bin+mpi-dbgsym' in '../relion-bin+mpi-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+mpi+gui-dev' in '../librelion+mpi+gui-dev_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'relion-bin+mpi+gui' in '../relion-bin+mpi+gui_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion-dev' in '../librelion-dev_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+gui-1.4-1-dbgsym' in '../librelion+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'relion-bin' in '../relion-bin_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+mpi-1.4-1' in '../librelion+mpi-1.4-1_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'relion-bin+mpi+gui-dbgsym' in '../relion-bin+mpi+gui-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'relion-bin-dbgsym' in '../relion-bin-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+mpi-1.4-1-dbgsym' in '../librelion+mpi-1.4-1-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+mpi-dev' in '../librelion+mpi-dev_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'relion-bin+gui' in '../relion-bin+gui_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'relion-bin+gui-dbgsym' in '../relion-bin+gui-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion-1.4-1' in '../librelion-1.4-1_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'relion-bin+mpi' in '../relion-bin+mpi_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion-dev-common' in '../librelion-dev-common_1.4+dfsg-4_all.deb'. dpkg-deb: building package 'librelion-1.4-1-dbgsym' in '../librelion-1.4-1-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+gui-dev' in '../librelion+gui-dev_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+mpi+gui-1.4-1' in '../librelion+mpi+gui-1.4-1_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+gui-1.4-1' in '../librelion+gui-1.4-1_1.4+dfsg-4_i386.deb'. dpkg-deb: building package 'librelion+mpi+gui-1.4-1-dbgsym' in '../librelion+mpi+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../relion_1.4+dfsg-4_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from relion-1.4+dfsg/debian/source/options: --compression=xz 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/13808 and its subdirectories I: Current time: Sun Aug 2 04:02:40 -12 2020 I: pbuilder-time-stamp: 1596384160 Sun Aug 2 16:02:41 UTC 2020 I: 1st build successful. Starting 2nd build on remote node profitbricks-build16-i386.debian.net. Sun Aug 2 16:02:41 UTC 2020 I: Preparing to do remote build '2' on profitbricks-build16-i386.debian.net. Sun Aug 2 16:09:25 UTC 2020 I: Deleting $TMPDIR on profitbricks-build16-i386.debian.net. Sun Aug 2 16:09:25 UTC 2020 I: relion_1.4+dfsg-4_i386.changes: Format: 1.8 Date: Thu, 14 Jun 2018 14:10:42 +0200 Source: relion Binary: librelion+gui-1.4-1 librelion+gui-1.4-1-dbgsym librelion+gui-dev librelion+mpi+gui-1.4-1 librelion+mpi+gui-1.4-1-dbgsym librelion+mpi+gui-dev librelion+mpi-1.4-1 librelion+mpi-1.4-1-dbgsym librelion+mpi-dev librelion-1.4-1 librelion-1.4-1-dbgsym librelion-dev librelion-dev-common relion-bin relion-bin+gui relion-bin+gui-dbgsym relion-bin+mpi relion-bin+mpi+gui relion-bin+mpi+gui-dbgsym relion-bin+mpi-dbgsym relion-bin-dbgsym Architecture: i386 all Version: 1.4+dfsg-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: librelion+gui-1.4-1 - RELION dynnamic library (3D reconstructions in cryo-electron micr librelion+gui-dev - C++ API for RELION (3D reconstructions in cryo-electron microscop librelion+mpi+gui-1.4-1 - RELION dynnamic library (3D reconstructions in cryo-electron micr librelion+mpi+gui-dev - C++ API for RELION (3D reconstructions in cryo-electron microscop librelion+mpi-1.4-1 - RELION dynnamic library (3D reconstructions in cryo-electron micr librelion+mpi-dev - C++ API for RELION (3D reconstructions in cryo-electron microscop librelion-1.4-1 - RELION dynnamic library (3D reconstructions in cryo-electron micr librelion-dev - C++ API for RELION (3D reconstructions in cryo-electron microscop librelion-dev-common - C++ API for RELION (3D reconstructions in cryo-electron microscop relion-bin - toolkit for 3D reconstructions in cryo-electron microscopy relion-bin+gui - parallel toolkit for 3D reconstructions in cryo-electron microsco relion-bin+mpi - parallel toolkit for 3D reconstructions in cryo-electron microsco relion-bin+mpi+gui - parallel toolkit for 3D reconstructions in cryo-electron microsco Closes: 897239 Changes: relion (1.4+dfsg-4) unstable; urgency=medium . * Team upload. * Add watch file (and delete README.source that explains why there is no watch file) * New upstream version * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.1.4 * Restrict architectures to amd64 and i386 Closes: #897239 Checksums-Sha1: 8d1df1970945611c5123c55f95fbc3021def2f41 10018088 librelion+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb 2ebcf82c077d929cfbc893ba6af6c021e05856cc 699340 librelion+gui-1.4-1_1.4+dfsg-4_i386.deb f6b257c48d37c7ae1df213ec35e0ec56e0323613 843984 librelion+gui-dev_1.4+dfsg-4_i386.deb aa5e47e2fa786f866436fe0440c7ab4acfba2ba7 11212928 librelion+mpi+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb b3028ee379aa6f89875236843fdb4ea8d0ac353b 751972 librelion+mpi+gui-1.4-1_1.4+dfsg-4_i386.deb 3b1a0fe9bef26998452d3dddd3c0f7a43a3e2baf 958784 librelion+mpi+gui-dev_1.4+dfsg-4_i386.deb 03e7ba758894c4c6378194296fe798dcc20ea57b 9605724 librelion+mpi-1.4-1-dbgsym_1.4+dfsg-4_i386.deb 4841ad0737aa0eb5ec0f1b45725ce9662001cc18 634536 librelion+mpi-1.4-1_1.4+dfsg-4_i386.deb 644beced3df121d47911dab0914a5afef89fe479 820588 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a56f2773e464f085f2b98ee60c8598fb910e24f4 200400 relion-bin_1.4+dfsg-4_i386.deb f344ac3c260e1e41dc2e64c7e3ca194aff091d21 13573 relion_1.4+dfsg-4_i386.buildinfo Checksums-Sha256: dcd37d80fa77ff47528445f4c5332aee88bde4608a0e6bd4279618fffb45293e 10018088 librelion+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb c5a03ecf6622689555e0cc760a1a2e76ed3e6b7a94cd01d720eb07b9f2375ba0 699340 librelion+gui-1.4-1_1.4+dfsg-4_i386.deb d3e747b62df1bfbc08d9b3ad7bb400acfb4ccd30dfda23a78e7b3b2b457c67ba 843984 librelion+gui-dev_1.4+dfsg-4_i386.deb a437cc9c46952134c076d6e7636824d33f459f1555a41b8fc730e32b19bd0c96 11212928 librelion+mpi+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb be85698598a14374631d996a62a63b35c1411717dcd56754b0935cc052358949 751972 librelion+mpi+gui-1.4-1_1.4+dfsg-4_i386.deb 69690ae09d4d5ec42dde20067efe5b99c2756720f23dfa1c32846262cd15a9ae 958784 librelion+mpi+gui-dev_1.4+dfsg-4_i386.deb 895cf80ff8001105c0df4c4dc7e29f2dc2c5725625d7bc4c9c9978c33c69b172 9605724 librelion+mpi-1.4-1-dbgsym_1.4+dfsg-4_i386.deb f53d55c8e3a8c6481ff49c2e2489962bb92583d74ff584635502c4bc61473883 634536 librelion+mpi-1.4-1_1.4+dfsg-4_i386.deb 9cd4b972eaae01fecd98421980fd84293918630d5cc1c98203b0f67305bc56bc 820588 librelion+mpi-dev_1.4+dfsg-4_i386.deb c4f912728bd3b8f8b01c89d08dd641efc71b850f625ccbb5d1fc75491079e25b 8405028 librelion-1.4-1-dbgsym_1.4+dfsg-4_i386.deb 86a0af6744cdc93790c463ffaf49595f2b39d7829e98898dca8b8a9505ff5713 580968 librelion-1.4-1_1.4+dfsg-4_i386.deb baeceee43a2ba6b1f036ad4b8f646fd489d7c65cf2a0dbedc67837f0c3fbaba6 136204 librelion-dev-common_1.4+dfsg-4_all.deb d6174f7add872614d2dcafb685ab037d7b5ec2a0e2e5185a412e4575c43c0e2d 710048 librelion-dev_1.4+dfsg-4_i386.deb 8344d8ecac6210dedb8de4c3144526021746e3cf69f20cf538e306e3eca25ad6 3869952 relion-bin+gui-dbgsym_1.4+dfsg-4_i386.deb 056121a50ab897710906034dca12d9927c572627e2b20157d855413d9fd11ad7 204660 relion-bin+gui_1.4+dfsg-4_i386.deb 3285c07d617566705c58eab2c2b918f9fcd2f66497e0169028b7c95457ae862f 5090396 relion-bin+mpi+gui-dbgsym_1.4+dfsg-4_i386.deb c78a9afae37389152914cd92a02a83de1291b2ad39aa11c2fe80766f7948d676 252840 relion-bin+mpi+gui_1.4+dfsg-4_i386.deb 2fbd7c73affd3d643217e5ae4d0795ab73131a7d924e0068d65a2658bfdb6daf 4883560 relion-bin+mpi-dbgsym_1.4+dfsg-4_i386.deb 9fa7b95b2fbd28ef5a9c25c84fde0f111f83af39af43401bf72a3899f9411ee1 248860 relion-bin+mpi_1.4+dfsg-4_i386.deb 875feab37c242a244ce76f5f457f21452f3c1e21aae33146c6b304a35c219f20 3660100 relion-bin-dbgsym_1.4+dfsg-4_i386.deb b5fd071d81c4afc499a316e2172037fd60a0110383c3919211b151bec9cef5f0 200400 relion-bin_1.4+dfsg-4_i386.deb cf299b0085bd0a8f27b9916181d461d5659df04ba712720c3bc1e3e62f889d54 13573 relion_1.4+dfsg-4_i386.buildinfo Files: 8a249df8969bc7a120d804c9da1ad944 10018088 debug optional librelion+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb bbb2f3f065eb6160f81329e529643de2 699340 libs optional librelion+gui-1.4-1_1.4+dfsg-4_i386.deb 353588e58a3f0dc4a69b7d907dc422a7 843984 libdevel optional librelion+gui-dev_1.4+dfsg-4_i386.deb aece1424cf4c1eb947845d6fd6af49e7 11212928 debug optional librelion+mpi+gui-1.4-1-dbgsym_1.4+dfsg-4_i386.deb e89af8b46327be52b1f716aee3373566 751972 libs optional librelion+mpi+gui-1.4-1_1.4+dfsg-4_i386.deb 6af1007f084397b9b41dd80e7a729dd9 958784 libdevel optional librelion+mpi+gui-dev_1.4+dfsg-4_i386.deb 31da907a080c8d5e9b6ec43de0d5c986 9605724 debug optional librelion+mpi-1.4-1-dbgsym_1.4+dfsg-4_i386.deb ce9687cbec1bed4684e9e979f6c65ae3 634536 libs optional librelion+mpi-1.4-1_1.4+dfsg-4_i386.deb c71008e823bb911ecec8ce7f2f12ecf4 820588 libdevel optional librelion+mpi-dev_1.4+dfsg-4_i386.deb 490c64ca12e51e65a2ad2c6c66bff03e 8405028 debug optional librelion-1.4-1-dbgsym_1.4+dfsg-4_i386.deb f9cfedc1bf64ef7134f1955043522f8e 580968 libs optional librelion-1.4-1_1.4+dfsg-4_i386.deb fc05ba8400b3810ca5e04f8096ab4c6a 136204 libdevel optional librelion-dev-common_1.4+dfsg-4_all.deb 1ce048a4dece0a29ca4fdf2e60562b12 710048 libdevel optional librelion-dev_1.4+dfsg-4_i386.deb cb98f11fdf0f0b9b539104c15e2a7816 3869952 debug optional relion-bin+gui-dbgsym_1.4+dfsg-4_i386.deb e42f289c83a2349e685c67c0f21240b9 204660 science optional relion-bin+gui_1.4+dfsg-4_i386.deb b3e7c60b94d5f3039e5038754c4def2e 5090396 debug optional relion-bin+mpi+gui-dbgsym_1.4+dfsg-4_i386.deb d10e2d7cb911f0a92b85512af492c9c0 252840 science optional relion-bin+mpi+gui_1.4+dfsg-4_i386.deb 1f4c43c7585bfbd9cae16556739a4d8a 4883560 debug optional relion-bin+mpi-dbgsym_1.4+dfsg-4_i386.deb 88e094889a0368f49749b6d016148efd 248860 science optional relion-bin+mpi_1.4+dfsg-4_i386.deb adc4c3b7cffbabb8b1f575ce25c3777a 3660100 debug optional relion-bin-dbgsym_1.4+dfsg-4_i386.deb 1816313c4d87c6b6b84f39778b9645e2 200400 science optional relion-bin_1.4+dfsg-4_i386.deb a701b98e5f3ba6d7ed99d1884b52353a 13573 science optional relion_1.4+dfsg-4_i386.buildinfo Sun Aug 2 16:09:26 UTC 2020 I: diffoscope 154 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.St2hcJ6Zs4/relion_1.4+dfsg-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.St2hcJ6Zs4/relion_1.4+dfsg-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.St2hcJ6Zs4/relion_1.4+dfsg-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.St2hcJ6Zs4/b1/relion_1.4+dfsg-4_i386.changes /srv/reproducible-results/rbuild-debian/tmp.St2hcJ6Zs4/b2/relion_1.4+dfsg-4_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.942s) 0.942s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.710s) 0.710s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sun Aug 2 16:09:29 UTC 2020 I: diffoscope 154 found no differences in the changes files, and a .buildinfo file also exists. Sun Aug 2 16:09:29 UTC 2020 I: relion from buster built successfully and reproducibly on i386. Sun Aug 2 16:09:30 UTC 2020 I: Submitting .buildinfo files to external archives: Sun Aug 2 16:09:30 UTC 2020 I: Submitting 16K b1/relion_1.4+dfsg-4_i386.buildinfo.asc Sun Aug 2 16:09:31 UTC 2020 I: Submitting 16K b2/relion_1.4+dfsg-4_i386.buildinfo.asc Sun Aug 2 16:09:31 UTC 2020 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Aug 2 16:09:31 UTC 2020 I: Done submitting .buildinfo files. Sun Aug 2 16:09:31 UTC 2020 I: Removing signed relion_1.4+dfsg-4_i386.buildinfo.asc files: removed './b1/relion_1.4+dfsg-4_i386.buildinfo.asc' removed './b2/relion_1.4+dfsg-4_i386.buildinfo.asc'