Tue Jan 16 19:38:23 UTC 2024 I: starting to build spades/bookworm/i386 on jenkins on '2024-01-16 19:38' Tue Jan 16 19:38:23 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_2/10154/console.log Tue Jan 16 19:38:23 UTC 2024 I: Downloading source for bookworm/spades=3.15.5+dfsg-2 --2024-01-16 19:38:23-- http://cdn-fastly.deb.debian.org/debian/pool/main/s/spades/spades_3.15.5%2bdfsg-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2559 (2.5K) [text/prs.lines.tag] Saving to: ‘spades_3.15.5+dfsg-2.dsc’ 0K .. 100% 7.42M=0s 2024-01-16 19:38:23 (7.42 MB/s) - ‘spades_3.15.5+dfsg-2.dsc’ saved [2559/2559] Tue Jan 16 19:38:23 UTC 2024 I: spades_3.15.5+dfsg-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: spades Binary: spades Architecture: any Version: 3.15.5+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Sascha Steinbiss , Michael R. Crusoe , Alexandre Mestiashvili , Étienne Mollier Homepage: http://cab.spbu.ru/software/spades/ Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/spades Vcs-Git: https://salsa.debian.org/med-team/spades.git Testsuite: autopkgtest Testsuite-Triggers: bwa Build-Depends: debhelper-compat (= 13), dh-python, clang-format, clang-tidy, clang-tools, cmake, python3-all, zlib1g-dev, libbz2-dev, libbam-dev, libbamtools-dev, libc++-dev, libhts-dev, libnlopt-dev, libnlopt-cxx-dev, libssw-dev, llvm-dev, python3-yaml, python3-joblib, asciidoctor, bwa, libbwa-dev, lynx Package-List: spades deb science optional arch=any Checksums-Sha1: 3632ecbbb4aa79d6ddc62a7ae49ca7a62304071b 9903196 spades_3.15.5+dfsg.orig.tar.xz 0c402e8c94e309bf229ca2a4a1336f7b4ff4a372 30384 spades_3.15.5+dfsg-2.debian.tar.xz Checksums-Sha256: 45c205c1b2f2b868246e69526f7a84e3fe7fd5ebe3c846501e9a6c14c12fa975 9903196 spades_3.15.5+dfsg.orig.tar.xz 4ab602abc1906f6a9608d44203305f297bfafe2a3d9fbedc1fa9a0e45bfe8fb6 30384 spades_3.15.5+dfsg-2.debian.tar.xz Files: a54a5740761cad4460cfae855ecbe4c1 9903196 spades_3.15.5+dfsg.orig.tar.xz f354e98d3e3f307c252ce8b5e290bbc3 30384 spades_3.15.5+dfsg-2.debian.tar.xz Dgit: 90daf06770fd60a7d6273c63597cde0dbdc56538 debian archive/debian/3.15.5+dfsg-2 https://git.dgit.debian.org/spades -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmNVcNIUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdp8Rw/+IxN4GOJLNWvcPGb9c5tXOOR+IKTK ToJUKARATu+Xmm4mNwsAVbTAYd5p1PTpnkVsuGkAq3TOMg+GzZo9Z1Ni675/B4Na +TwdnTCmuPhyJY7w8zieYb/DE/Rm86rVrPvudgtNzPXX+IBnFFcaiyiEEbMu+BtS 9prrtwD9TUQ5ZMa0nud2bSRpZGyBa6YhUNpUgdhd+blYqp5QqdQEvHZiEO1+FVtV z1DCA7Om7PvHBJ7bPJId+1S86a0WwJaOsgjdgNFp7BEhISmUYYjPX/L6T9iakSih Zpa8h3X2ISpiztPCHN23wZu9CMl+f9QiaIPj9XycyXkVwMz9AG8MOlkiC4AvTn6R HebYqCahwIyuCLFkLiiV4fNOoZGakFfKGg/BtyAv4irgQdwicWSJ73cXICjkJbkC j4k+FkT1LE2a5w5C4QQSEeGtHp4W8u+gMJrcKaq+EvSGfmz4s1Whgs1mrtwA2cRl KBGoSEL1HJP8xrbYWN8VBtE0azYyDLNq4OieYaOjkvia4083cypiXlElpOb5CovA 6ltDb7Hk7ScMHTAl2IYNksbCLWoIdwWGfhWFmr9W595hiCQpwieFszi18EnBfU4G rQwx9Ho1wyeLLViRCOwo9BdnXaE+uI7ztRh2LyyLBTYVJVo0Hb7/Y9l7+g3N4Y2L fxlHoGk1StQMQCM= =Solw -----END PGP SIGNATURE----- Tue Jan 16 19:38:23 UTC 2024 I: Checking whether the package is not for us Tue Jan 16 19:38:23 UTC 2024 I: Starting 1st build on remote node ionos6-i386.debian.net. Tue Jan 16 19:38:23 UTC 2024 I: Preparing to do remote build '1' on ionos6-i386.debian.net. Tue Jan 16 19:39:54 UTC 2024 I: Deleting $TMPDIR on ionos6-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Feb 17 14:01:28 -12 2025 I: pbuilder-time-stamp: 1739844088 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [spades_3.15.5+dfsg-2.dsc] I: copying [./spades_3.15.5+dfsg.orig.tar.xz] I: copying [./spades_3.15.5+dfsg-2.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Oct 23 16:50:26 2022 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./spades_3.15.5+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting spades in spades-3.15.5+dfsg dpkg-source: info: unpacking spades_3.15.5+dfsg.orig.tar.xz dpkg-source: info: unpacking spades_3.15.5+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0002_use_debian_packaged_python-joblib.patch dpkg-source: info: applying 0003_accept-system-bwa.patch dpkg-source: info: applying 0101_cmake_ignore_removed_python-yaml.patch dpkg-source: info: applying 0102_cmake_ignore_removed_python-joblib.patch dpkg-source: info: applying 0103_use-debian-packaged-bwa.patch dpkg-source: info: applying 0114_use_debian_provided_libs.patch dpkg-source: info: applying 0118_adjust_spades_home_again.patch dpkg-source: info: applying fix-bool-cast dpkg-source: info: applying python3.patch dpkg-source: info: applying yaml_load.patch dpkg-source: info: applying debuginfo.patch dpkg-source: info: applying debian_bwa_zlib.patch dpkg-source: info: applying workdir_for_test.patch dpkg-source: info: applying disable_local_convertutf.patch dpkg-source: info: applying fix-sigill-on-non-popcnt-cpus.patch dpkg-source: info: applying fix-privacy-breaches.patch dpkg-source: info: applying typos.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/128141/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='faaab986d3b945cc847543883ee938d1' 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='128141' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.XSyUnSNi/pbuilderrc_dbDz --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.XSyUnSNi/b1 --logfile b1/build.log spades_3.15.5+dfsg-2.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://85.184.249.68:3128' I: uname -a Linux ionos6-i386 6.1.0-17-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) x86_64 GNU/Linux I: ls -l /bin total 6036 -rwxr-xr-x 1 root root 1408088 Apr 23 2023 bash -rwxr-xr-x 3 root root 38404 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 38404 Sep 19 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep -rwxr-xr-x 3 root root 38404 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 17892 Sep 19 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore -rwxr-xr-x 1 root root 42920 Sep 20 2022 cat -rwxr-xr-x 1 root root 79816 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 79816 Sep 20 2022 chown -rwxr-xr-x 1 root root 162024 Sep 20 2022 cp -rwxr-xr-x 1 root root 136916 Jan 5 2023 dash -rwxr-xr-x 1 root root 137160 Sep 20 2022 date -rwxr-xr-x 1 root root 100364 Sep 20 2022 dd -rwxr-xr-x 1 root root 108940 Sep 20 2022 df -rwxr-xr-x 1 root root 162152 Sep 20 2022 dir -rwxr-xr-x 1 root root 87760 Mar 23 2023 dmesg lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname -rwxr-xr-x 1 root root 38760 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 34664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 84272 Mar 23 2023 findmnt -rwsr-xr-x 1 root root 30240 Mar 23 2023 fusermount -rwxr-xr-x 1 root root 218680 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 100952 Apr 10 2022 gzip -rwxr-xr-x 1 root root 21916 Dec 19 2022 hostname -rwxr-xr-x 1 root root 75756 Sep 20 2022 ln -rwxr-xr-x 1 root root 55600 Mar 23 2023 login -rwxr-xr-x 1 root root 162152 Sep 20 2022 ls -rwxr-xr-x 1 root root 214568 Mar 23 2023 lsblk -rwxr-xr-x 1 root root 96328 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 84008 Sep 20 2022 mknod -rwxr-xr-x 1 root root 38792 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 63016 Mar 23 2023 more -rwsr-xr-x 1 root root 58912 Mar 23 2023 mount -rwxr-xr-x 1 root root 13856 Mar 23 2023 mountpoint -rwxr-xr-x 1 root root 157932 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38792 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 51080 Sep 20 2022 readlink -rwxr-xr-x 1 root root 75720 Sep 20 2022 rm -rwxr-xr-x 1 root root 51080 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 22308 Jul 28 2023 run-parts -rwxr-xr-x 1 root root 133224 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 38760 Sep 20 2022 sleep -rwxr-xr-x 1 root root 87976 Sep 20 2022 stty -rwsr-xr-x 1 root root 83492 Mar 23 2023 su -rwxr-xr-x 1 root root 38792 Sep 20 2022 sync -rwxr-xr-x 1 root root 598456 Apr 6 2023 tar -rwxr-xr-x 1 root root 13860 Jul 28 2023 tempfile -rwxr-xr-x 1 root root 120776 Sep 20 2022 touch -rwxr-xr-x 1 root root 34664 Sep 20 2022 true -rwxr-xr-x 1 root root 17892 Mar 23 2023 ulockmgr_server -rwsr-xr-x 1 root root 30236 Mar 23 2023 umount -rwxr-xr-x 1 root root 38760 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 162152 Sep 20 2022 vdir -rwxr-xr-x 1 root root 71216 Mar 23 2023 wdctl lrwxrwxrwx 1 root root 8 Dec 19 2022 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/128141/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-compat (= 13), dh-python, clang-format, clang-tidy, clang-tools, cmake, python3-all, zlib1g-dev, libbz2-dev, libbam-dev, libbamtools-dev, libc++-dev, libhts-dev, libnlopt-dev, libnlopt-cxx-dev, libssw-dev, llvm-dev, python3-yaml, python3-joblib, asciidoctor, bwa, libbwa-dev, lynx dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 18156 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-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on clang-format; however: Package clang-format is not installed. pbuilder-satisfydepends-dummy depends on clang-tidy; however: Package clang-tidy is not installed. pbuilder-satisfydepends-dummy depends on clang-tools; however: Package clang-tools is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libbam-dev; however: Package libbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libbamtools-dev; however: Package libbamtools-dev is not installed. pbuilder-satisfydepends-dummy depends on libc++-dev; however: Package libc++-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libnlopt-dev; however: Package libnlopt-dev is not installed. pbuilder-satisfydepends-dummy depends on libnlopt-cxx-dev; however: Package libnlopt-cxx-dev is not installed. pbuilder-satisfydepends-dummy depends on libssw-dev; however: Package libssw-dev is not installed. pbuilder-satisfydepends-dummy depends on llvm-dev; however: Package llvm-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml is not installed. pbuilder-satisfydepends-dummy depends on python3-joblib; however: Package python3-joblib is not installed. pbuilder-satisfydepends-dummy depends on asciidoctor; however: Package asciidoctor is not installed. pbuilder-satisfydepends-dummy depends on bwa; however: Package bwa is not installed. pbuilder-satisfydepends-dummy depends on libbwa-dev; however: Package libbwa-dev is not installed. pbuilder-satisfydepends-dummy depends on lynx; however: Package lynx 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: asciidoctor{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} bwa{a} ca-certificates{a} clang-14{a} clang-format{a} clang-format-14{a} clang-tidy{a} clang-tidy-14{a} clang-tools{a} clang-tools-14{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbam-dev{a} libbamtools-dev{a} libbamtools2.5.2{a} libbrotli1{a} libbsd0{a} libbwa-dev{a} libbz2-dev{a} libc++-14-dev{a} libc++-dev{a} libc++1-14{a} libc++abi1-14{a} libclang-common-14-dev{a} libclang-cpp14{a} libclang1-14{a} libcurl3-gnutls{a} libcurl3-nss{a} libcurl4{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libedit2{a} libelf1{a} libexpat1{a} libffi-dev{a} libfile-stripnondeterminism-perl{a} libgc1{a} libhts-dev{a} libhts3{a} libhtscodecs2{a} libicu-dev{a} libicu72{a} libjsoncpp25{a} libldap-2.5-0{a} libllvm14{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnlopt-cxx-dev{a} libnlopt-cxx0{a} libnlopt-dev{a} libnlopt0{a} libnspr4{a} libnss3{a} libobjc-12-dev{a} libobjc4{a} libpfm4{a} libpipeline1{a} libproc2-0{a} libpsl5{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8{a} librhash0{a} librtmp1{a} libruby{a} libruby3.1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libssw-dev{a} libssw0{a} libsub-override-perl{a} libtinfo-dev{a} libtool{a} libuchardet0{a} libunwind-14{a} libunwind-14-dev{a} libuv1{a} libxml2{a} libxml2-dev{a} libyaml-0-2{a} libz3-4{a} libz3-dev{a} llvm{a} llvm-14{a} llvm-14-dev{a} llvm-14-linker-tools{a} llvm-14-runtime{a} llvm-14-tools{a} llvm-dev{a} llvm-runtime{a} lynx{a} lynx-common{a} m4{a} man-db{a} media-types{a} nss-plugin-pem{a} openssl{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-distutils{a} python3-joblib{a} python3-lib2to3{a} python3-minimal{a} python3-pkg-resources{a} python3-pygments{a} python3-yaml{a} python3.11{a} python3.11-minimal{a} rake{a} readline-common{a} ruby{a} ruby-asciidoctor{a} ruby-net-telnet{a} ruby-rubygems{a} ruby-sdbm{a} ruby-webrick{a} ruby-xmlrpc{a} ruby3.1{a} rubygems-integration{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: binfmt-support bzip2-doc fonts-lato libarchive-cpio-perl libclang-rt-14-dev libgpm2 libjs-jquery libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules mailcap psmisc publicsuffix python3-numpy python3-psutil python3-pytest python3-simplejson systemd zip 0 packages upgraded, 149 newly installed, 0 to remove and 0 not upgraded. Need to get 190 MB of archives. After unpacking 904 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main i386 libpython3.11-minimal i386 3.11.2-6 [813 kB] Get: 2 http://deb.debian.org/debian bookworm/main i386 libexpat1 i386 2.5.0-1 [103 kB] Get: 3 http://deb.debian.org/debian bookworm/main i386 python3.11-minimal i386 3.11.2-6 [2130 kB] Get: 4 http://deb.debian.org/debian bookworm/main i386 python3-minimal i386 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main i386 media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main i386 readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main i386 libreadline8 i386 8.2-1.3 [171 kB] Get: 8 http://deb.debian.org/debian bookworm/main i386 libpython3.11-stdlib i386 3.11.2-6 [1799 kB] Get: 9 http://deb.debian.org/debian bookworm/main i386 python3.11 i386 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main i386 libpython3-stdlib i386 3.11.2-1+b1 [9308 B] Get: 11 http://deb.debian.org/debian bookworm/main i386 python3 i386 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main i386 libproc2-0 i386 2:4.0.2-3 [63.7 kB] Get: 13 http://deb.debian.org/debian bookworm/main i386 procps i386 2:4.0.2-3 [706 kB] Get: 14 http://deb.debian.org/debian bookworm/main i386 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 15 http://deb.debian.org/debian bookworm/main i386 openssl i386 3.0.11-1~deb12u2 [1423 kB] Get: 16 http://deb.debian.org/debian bookworm/main i386 ca-certificates all 20230311 [153 kB] Get: 17 http://deb.debian.org/debian bookworm/main i386 libmagic-mgc i386 1:5.44-3 [305 kB] Get: 18 http://deb.debian.org/debian bookworm/main i386 libmagic1 i386 1:5.44-3 [114 kB] Get: 19 http://deb.debian.org/debian bookworm/main i386 file i386 1:5.44-3 [42.5 kB] Get: 20 http://deb.debian.org/debian bookworm/main i386 gettext-base i386 0.21-12 [162 kB] Get: 21 http://deb.debian.org/debian bookworm/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 22 http://deb.debian.org/debian bookworm/main i386 groff-base i386 1.22.4-10 [932 kB] Get: 23 http://deb.debian.org/debian bookworm/main i386 bsdextrautils i386 2.38.1-5+b1 [90.3 kB] Get: 24 http://deb.debian.org/debian bookworm/main i386 libpipeline1 i386 1.5.7-1 [40.0 kB] Get: 25 http://deb.debian.org/debian bookworm/main i386 man-db i386 2.11.2-2 [1397 kB] Get: 26 http://deb.debian.org/debian bookworm/main i386 rubygems-integration all 1.18 [6704 B] Get: 27 http://deb.debian.org/debian bookworm/main i386 rake all 13.0.6-3 [83.9 kB] Get: 28 http://deb.debian.org/debian bookworm/main i386 ruby-net-telnet all 0.2.0-1 [13.1 kB] Get: 29 http://deb.debian.org/debian bookworm/main i386 ruby-webrick all 1.8.1-1 [51.4 kB] Get: 30 http://deb.debian.org/debian bookworm/main i386 ruby-xmlrpc all 0.3.2-2 [24.4 kB] Get: 31 http://deb.debian.org/debian bookworm/main i386 libruby i386 1:3.1 [4968 B] Get: 32 http://deb.debian.org/debian bookworm/main i386 ruby-sdbm i386 1.0.0-5+b1 [16.7 kB] Get: 33 http://deb.debian.org/debian bookworm/main i386 libbsd0 i386 0.11.7-2 [121 kB] Get: 34 http://deb.debian.org/debian bookworm/main i386 libedit2 i386 3.1-20221030-2 [97.2 kB] Get: 35 http://deb.debian.org/debian bookworm/main i386 libncurses6 i386 6.4-4 [111 kB] Get: 36 http://deb.debian.org/debian bookworm/main i386 libyaml-0-2 i386 0.2.5-1 [55.9 kB] Get: 37 http://deb.debian.org/debian bookworm/main i386 libruby3.1 i386 3.1.2-7 [5459 kB] Get: 38 http://deb.debian.org/debian bookworm/main i386 ruby3.1 i386 3.1.2-7 [663 kB] Get: 39 http://deb.debian.org/debian bookworm/main i386 ruby-rubygems all 3.3.15-2 [293 kB] Get: 40 http://deb.debian.org/debian bookworm/main i386 ruby i386 1:3.1 [5872 B] Get: 41 http://deb.debian.org/debian bookworm/main i386 ruby-asciidoctor all 2.0.18-2 [211 kB] Get: 42 http://deb.debian.org/debian bookworm/main i386 asciidoctor all 2.0.18-2 [86.6 kB] Get: 43 http://deb.debian.org/debian bookworm/main i386 m4 i386 1.4.19-3 [294 kB] Get: 44 http://deb.debian.org/debian bookworm/main i386 autoconf all 2.71-3 [332 kB] Get: 45 http://deb.debian.org/debian bookworm/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 46 http://deb.debian.org/debian bookworm/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 47 http://deb.debian.org/debian bookworm/main i386 autopoint all 0.21-12 [495 kB] Get: 48 http://deb.debian.org/debian bookworm/main i386 bwa i386 0.7.17-7+b2 [237 kB] Get: 49 http://deb.debian.org/debian bookworm/main i386 libicu72 i386 72.1-3 [9541 kB] Get: 50 http://deb.debian.org/debian bookworm/main i386 libxml2 i386 2.9.14+dfsg-1.3~deb12u1 [720 kB] Get: 51 http://deb.debian.org/debian bookworm/main i386 libz3-4 i386 4.8.12-3.1 [7853 kB] Get: 52 http://deb.debian.org/debian bookworm/main i386 libllvm14 i386 1:14.0.6-12 [25.0 MB] Get: 53 http://deb.debian.org/debian bookworm/main i386 libclang-cpp14 i386 1:14.0.6-12 [12.7 MB] Get: 54 http://deb.debian.org/debian bookworm/main i386 libgc1 i386 1:8.2.2-3 [246 kB] Get: 55 http://deb.debian.org/debian bookworm/main i386 libobjc4 i386 12.2.0-14 [45.6 kB] Get: 56 http://deb.debian.org/debian bookworm/main i386 libobjc-12-dev i386 12.2.0-14 [165 kB] Get: 57 http://deb.debian.org/debian bookworm/main i386 libclang-common-14-dev all 1:14.0.6-12 [890 kB] Get: 58 http://deb.debian.org/debian bookworm/main i386 llvm-14-linker-tools i386 1:14.0.6-12 [1383 kB] Get: 59 http://deb.debian.org/debian bookworm/main i386 libclang1-14 i386 1:14.0.6-12 [7086 kB] Get: 60 http://deb.debian.org/debian bookworm/main i386 clang-14 i386 1:14.0.6-12 [106 kB] Get: 61 http://deb.debian.org/debian bookworm/main i386 clang-format-14 i386 1:14.0.6-12 [77.4 kB] Get: 62 http://deb.debian.org/debian bookworm/main i386 clang-format i386 1:14.0-55.7~deb12u1 [5260 B] Get: 63 http://deb.debian.org/debian bookworm/main i386 clang-tools-14 i386 1:14.0.6-12 [7628 kB] Get: 64 http://deb.debian.org/debian bookworm/main i386 python3-yaml i386 6.0-3+b2 [119 kB] Get: 65 http://deb.debian.org/debian bookworm/main i386 clang-tidy-14 i386 1:14.0.6-12 [1699 kB] Get: 66 http://deb.debian.org/debian bookworm/main i386 clang-tidy i386 1:14.0-55.7~deb12u1 [5024 B] Get: 67 http://deb.debian.org/debian bookworm/main i386 clang-tools i386 1:14.0-55.7~deb12u1 [5032 B] Get: 68 http://deb.debian.org/debian bookworm/main i386 libarchive13 i386 3.6.2-1 [385 kB] Get: 69 http://deb.debian.org/debian bookworm/main i386 libbrotli1 i386 1.0.9-2+b6 [275 kB] Get: 70 http://deb.debian.org/debian bookworm/main i386 libsasl2-modules-db i386 2.1.28+dfsg-10 [21.4 kB] Get: 71 http://deb.debian.org/debian bookworm/main i386 libsasl2-2 i386 2.1.28+dfsg-10 [62.7 kB] Get: 72 http://deb.debian.org/debian bookworm/main i386 libldap-2.5-0 i386 2.5.13+dfsg-5 [196 kB] Get: 73 http://deb.debian.org/debian bookworm/main i386 libnghttp2-14 i386 1.52.0-1+deb12u1 [80.7 kB] Get: 74 http://deb.debian.org/debian bookworm/main i386 libpsl5 i386 0.21.2-1 [59.3 kB] Get: 75 http://deb.debian.org/debian bookworm/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB] Get: 76 http://deb.debian.org/debian bookworm/main i386 libssh2-1 i386 1.10.0-3+b1 [187 kB] Get: 77 http://deb.debian.org/debian bookworm/main i386 libcurl4 i386 7.88.1-10+deb12u4 [424 kB] Get: 78 http://deb.debian.org/debian bookworm/main i386 libjsoncpp25 i386 1.9.5-4 [86.2 kB] Get: 79 http://deb.debian.org/debian bookworm/main i386 librhash0 i386 1.4.3-3 [149 kB] Get: 80 http://deb.debian.org/debian bookworm/main i386 libuv1 i386 1.44.2-1 [147 kB] Get: 81 http://deb.debian.org/debian bookworm/main i386 cmake-data all 3.25.1-1 [2026 kB] Get: 82 http://deb.debian.org/debian bookworm/main i386 cmake i386 3.25.1-1 [9767 kB] Get: 83 http://deb.debian.org/debian bookworm/main i386 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 84 http://deb.debian.org/debian bookworm/main i386 libtool all 2.4.7-5 [517 kB] Get: 85 http://deb.debian.org/debian bookworm/main i386 dh-autoreconf all 20 [17.1 kB] Get: 86 http://deb.debian.org/debian bookworm/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 87 http://deb.debian.org/debian bookworm/main i386 libsub-override-perl all 0.09-4 [9304 B] Get: 88 http://deb.debian.org/debian bookworm/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 89 http://deb.debian.org/debian bookworm/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 90 http://deb.debian.org/debian bookworm/main i386 libelf1 i386 0.188-2.1 [179 kB] Get: 91 http://deb.debian.org/debian bookworm/main i386 dwz i386 0.15-1 [118 kB] Get: 92 http://deb.debian.org/debian bookworm/main i386 gettext i386 0.21-12 [1311 kB] Get: 93 http://deb.debian.org/debian bookworm/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 94 http://deb.debian.org/debian bookworm/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 95 http://deb.debian.org/debian bookworm/main i386 debhelper all 13.11.4 [942 kB] Get: 96 http://deb.debian.org/debian bookworm/main i386 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 97 http://deb.debian.org/debian bookworm/main i386 python3-distutils all 3.11.2-3 [131 kB] Get: 98 http://deb.debian.org/debian bookworm/main i386 dh-python all 5.20230130+deb12u1 [104 kB] Get: 99 http://deb.debian.org/debian bookworm/main i386 icu-devtools i386 72.1-3 [214 kB] Get: 100 http://deb.debian.org/debian bookworm/main i386 zlib1g-dev i386 1:1.2.13.dfsg-1 [913 kB] Get: 101 http://deb.debian.org/debian bookworm/main i386 libbam-dev i386 0.1.19+dfsg-6 [130 kB] Get: 102 http://deb.debian.org/debian bookworm/main i386 libbamtools2.5.2 i386 2.5.2+dfsg-4 [165 kB] Get: 103 http://deb.debian.org/debian bookworm/main i386 libbamtools-dev i386 2.5.2+dfsg-4 [233 kB] Get: 104 http://deb.debian.org/debian bookworm/main i386 libbwa-dev i386 0.7.17-7+b2 [172 kB] Get: 105 http://deb.debian.org/debian bookworm/main i386 libbz2-dev i386 1.0.8-5+b1 [31.5 kB] Get: 106 http://deb.debian.org/debian bookworm/main i386 libunwind-14 i386 1:14.0.6-12 [46.9 kB] Get: 107 http://deb.debian.org/debian bookworm/main i386 libc++abi1-14 i386 1:14.0.6-12 [88.5 kB] Get: 108 http://deb.debian.org/debian bookworm/main i386 libc++1-14 i386 1:14.0.6-12 [302 kB] Get: 109 http://deb.debian.org/debian bookworm/main i386 libunwind-14-dev i386 1:14.0.6-12 [62.7 kB] Get: 110 http://deb.debian.org/debian bookworm/main i386 libc++-14-dev i386 1:14.0.6-12 [939 kB] Get: 111 http://deb.debian.org/debian bookworm/main i386 libc++-dev i386 1:14.0-55.7~deb12u1 [4944 B] Get: 112 http://deb.debian.org/debian bookworm/main i386 libcurl3-gnutls i386 7.88.1-10+deb12u4 [417 kB] Get: 113 http://deb.debian.org/debian bookworm/main i386 libnspr4 i386 2:4.35-1 [123 kB] Get: 114 http://deb.debian.org/debian bookworm/main i386 libnss3 i386 2:3.87.1-1 [1439 kB] Get: 115 http://deb.debian.org/debian bookworm/main i386 nss-plugin-pem i386 1.0.8+1-1 [58.3 kB] Get: 116 http://deb.debian.org/debian bookworm/main i386 libcurl3-nss i386 7.88.1-10+deb12u4 [425 kB] Get: 117 http://deb.debian.org/debian bookworm/main i386 libcurl4-gnutls-dev i386 7.88.1-10+deb12u4 [532 kB] Get: 118 http://deb.debian.org/debian bookworm/main i386 libdeflate0 i386 1.14-1 [57.5 kB] Get: 119 http://deb.debian.org/debian bookworm/main i386 libdeflate-dev i386 1.14-1 [53.5 kB] Get: 120 http://deb.debian.org/debian bookworm/main i386 libffi-dev i386 3.4.4-1 [57.3 kB] Get: 121 http://deb.debian.org/debian bookworm/main i386 libhtscodecs2 i386 1.3.0-4 [67.4 kB] Get: 122 http://deb.debian.org/debian bookworm/main i386 libhts3 i386 1.16+ds-3 [469 kB] Get: 123 http://deb.debian.org/debian bookworm/main i386 liblzma-dev i386 5.4.1-0.2 [272 kB] Get: 124 http://deb.debian.org/debian bookworm/main i386 libhts-dev i386 1.16+ds-3 [1585 kB] Get: 125 http://deb.debian.org/debian bookworm/main i386 libicu-dev i386 72.1-3 [10.6 MB] Get: 126 http://deb.debian.org/debian bookworm/main i386 libncurses-dev i386 6.4-4 [379 kB] Get: 127 http://deb.debian.org/debian bookworm/main i386 libnlopt0 i386 2.7.1-5 [170 kB] Get: 128 http://deb.debian.org/debian bookworm/main i386 libnlopt-dev i386 2.7.1-5 [46.5 kB] Get: 129 http://deb.debian.org/debian bookworm/main i386 libnlopt-cxx0 i386 2.7.1-5 [199 kB] Get: 130 http://deb.debian.org/debian bookworm/main i386 libnlopt-cxx-dev i386 2.7.1-5 [13.1 kB] Get: 131 http://deb.debian.org/debian bookworm/main i386 libpfm4 i386 4.13.0-1 [241 kB] Get: 132 http://deb.debian.org/debian bookworm/main i386 libssw0 i386 1.1-13 [27.1 kB] Get: 133 http://deb.debian.org/debian bookworm/main i386 libssw-dev i386 1.1-13 [30.2 kB] Get: 134 http://deb.debian.org/debian bookworm/main i386 libtinfo-dev i386 6.4-4 [924 B] Get: 135 http://deb.debian.org/debian bookworm/main i386 libxml2-dev i386 2.9.14+dfsg-1.3~deb12u1 [846 kB] Get: 136 http://deb.debian.org/debian bookworm/main i386 libz3-dev i386 4.8.12-3.1 [90.6 kB] Get: 137 http://deb.debian.org/debian bookworm/main i386 llvm-14-runtime i386 1:14.0.6-12 [535 kB] Get: 138 http://deb.debian.org/debian bookworm/main i386 llvm-runtime i386 1:14.0-55.7~deb12u1 [4812 B] Get: 139 http://deb.debian.org/debian bookworm/main i386 llvm-14 i386 1:14.0.6-12 [13.9 MB] Get: 140 http://deb.debian.org/debian bookworm/main i386 llvm i386 1:14.0-55.7~deb12u1 [7216 B] Get: 141 http://deb.debian.org/debian bookworm/main i386 python3-pkg-resources all 66.1.1-1 [296 kB] Get: 142 http://deb.debian.org/debian bookworm/main i386 python3-pygments all 2.14.0+dfsg-1 [783 kB] Get: 143 http://deb.debian.org/debian bookworm/main i386 llvm-14-tools i386 1:14.0.6-12 [435 kB] Get: 144 http://deb.debian.org/debian bookworm/main i386 llvm-14-dev i386 1:14.0.6-12 [36.8 MB] Get: 145 http://deb.debian.org/debian bookworm/main i386 llvm-dev i386 1:14.0-55.7~deb12u1 [5064 B] Get: 146 http://deb.debian.org/debian bookworm/main i386 lynx-common all 2.9.0dev.12-1 [1166 kB] Get: 147 http://deb.debian.org/debian bookworm/main i386 lynx i386 2.9.0dev.12-1 [652 kB] Get: 148 http://deb.debian.org/debian bookworm/main i386 python3-all i386 3.11.2-1+b1 [1056 B] Get: 149 http://deb.debian.org/debian bookworm/main i386 python3-joblib all 1.2.0-4 [211 kB] Fetched 190 MB in 6s (34.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal: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 ... 18156 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_i386.deb ... Unpacking libpython3.11-minimal:i386 (3.11.2-6) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../libexpat1_2.5.0-1_i386.deb ... Unpacking libexpat1:i386 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_i386.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:i386 (3.11.2-6) ... Setting up libexpat1:i386 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18472 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_i386.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package readline-common. Preparing to unpack .../2-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../3-libreadline8_8.2-1.3_i386.deb ... Unpacking libreadline8:i386 (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:i386. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_i386.deb ... Unpacking libpython3.11-stdlib:i386 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_i386.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_i386.deb ... Unpacking libpython3-stdlib:i386 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18906 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_i386.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package libproc2-0:i386. Preparing to unpack .../001-libproc2-0_2%3a4.0.2-3_i386.deb ... Unpacking libproc2-0:i386 (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.2-3_i386.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../004-openssl_3.0.11-1~deb12u2_i386.deb ... Unpacking openssl (3.0.11-1~deb12u2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../005-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.44-3_i386.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../007-libmagic1_1%3a5.44-3_i386.deb ... Unpacking libmagic1:i386 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.44-3_i386.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.21-12_i386.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../010-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.22.4-10_i386.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../012-bsdextrautils_2.38.1-5+b1_i386.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../013-libpipeline1_1.5.7-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-1) ... Selecting previously unselected package man-db. 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Selecting previously unselected package libtinfo-dev:i386. Preparing to unpack .../123-libtinfo-dev_6.4-4_i386.deb ... Unpacking libtinfo-dev:i386 (6.4-4) ... Selecting previously unselected package libxml2-dev:i386. Preparing to unpack .../124-libxml2-dev_2.9.14+dfsg-1.3~deb12u1_i386.deb ... Unpacking libxml2-dev:i386 (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package libz3-dev:i386. Preparing to unpack .../125-libz3-dev_4.8.12-3.1_i386.deb ... Unpacking libz3-dev:i386 (4.8.12-3.1) ... Selecting previously unselected package llvm-14-runtime. Preparing to unpack .../126-llvm-14-runtime_1%3a14.0.6-12_i386.deb ... Unpacking llvm-14-runtime (1:14.0.6-12) ... Selecting previously unselected package llvm-runtime:i386. Preparing to unpack .../127-llvm-runtime_1%3a14.0-55.7~deb12u1_i386.deb ... Unpacking llvm-runtime:i386 (1:14.0-55.7~deb12u1) ... Selecting previously unselected package llvm-14. Preparing to unpack .../128-llvm-14_1%3a14.0.6-12_i386.deb ... 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Unpacking llvm-dev (1:14.0-55.7~deb12u1) ... Selecting previously unselected package lynx-common. Preparing to unpack .../135-lynx-common_2.9.0dev.12-1_all.deb ... Unpacking lynx-common (2.9.0dev.12-1) ... Selecting previously unselected package lynx. Preparing to unpack .../136-lynx_2.9.0dev.12-1_i386.deb ... Unpacking lynx (2.9.0dev.12-1) ... Selecting previously unselected package python3-all. Preparing to unpack .../137-python3-all_3.11.2-1+b1_i386.deb ... Unpacking python3-all (3.11.2-1+b1) ... Selecting previously unselected package python3-joblib. Preparing to unpack .../138-python3-joblib_1.2.0-4_all.deb ... Unpacking python3-joblib (1.2.0-4) ... Setting up libhtscodecs2:i386 (1.3.0-4) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:i386 (1.5.7-1) ... Setting up libpsl5:i386 (0.21.2-1) ... Setting up libicu72:i386 (72.1-3) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libyaml-0-2:i386 (0.2.5-1) ... Setting up bwa (0.7.17-7+b2) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:i386 (1.0.9-2+b6) ... Setting up libnghttp2-14:i386 (1.52.0-1+deb12u1) ... Setting up libmagic1:i386 (1:5.44-3) ... Setting up libdeflate0:i386 (1.14-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libnlopt0:i386 (2.7.1-5) ... Setting up file (1:5.44-3) ... Setting up libffi-dev:i386 (3.4.4-1) ... Setting up libsasl2-modules-db:i386 (2.1.28+dfsg-10) ... Setting up libunwind-14:i386 (1:14.0.6-12) ... Setting up libunwind-14-dev:i386 (1:14.0.6-12) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:i386 (4.8.12-3.1) ... Setting up libc++abi1-14:i386 (1:14.0.6-12) ... Setting up libuv1:i386 (1.44.2-1) ... Setting up libpfm4:i386 (4.13.0-1) ... Setting up libnspr4:i386 (2:4.35-1) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:i386 (6.4-4) ... Setting up ruby-net-telnet (0.2.0-1) ... Setting up libproc2-0:i386 (2:4.0.2-3) ... Setting up autopoint (0.21-12) ... Setting up libjsoncpp25:i386 (1.9.5-4) ... Setting up icu-devtools (72.1-3) ... Setting up lynx-common (2.9.0dev.12-1) ... Setting up libbamtools2.5.2:i386 (2.5.2+dfsg-4) ... Setting up libgc1:i386 (1:8.2.2-3) ... Setting up libsasl2-2:i386 (2.1.28+dfsg-10) ... Setting up autoconf (2.71-3) ... Setting up libbwa-dev (0.7.17-7+b2) ... Setting up libnlopt-cxx0:i386 (2.7.1-5) ... Setting up ruby-webrick (1.8.1-1) ... Setting up liblzma-dev:i386 (5.4.1-0.2) ... Setting up zlib1g-dev:i386 (1:1.2.13.dfsg-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up librhash0:i386 (1.4.3-3) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up procps (2:4.0.2-3) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:i386 (1.10.0-3+b1) ... Setting up cmake-data (3.25.1-1) ... Setting up libnlopt-dev:i386 (2.7.1-5) ... Setting up openssl (3.0.11-1~deb12u2) ... Setting up libbsd0:i386 (0.11.7-2) ... Setting up libdeflate-dev:i386 (1.14-1) ... Setting up libelf1:i386 (0.188-2.1) ... Setting up libssw0:i386 (1.1-13) ... Setting up readline-common (8.2-1.3) ... Setting up libicu-dev:i386 (72.1-3) ... Setting up ruby-xmlrpc (0.3.2-2) ... Setting up libxml2:i386 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libbz2-dev:i386 (1.0.8-5+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libz3-dev:i386 (4.8.12-3.1) ... Setting up libncurses-dev:i386 (6.4-4) ... Setting up gettext (0.21-12) ... Setting up libssw-dev:i386 (1.1-13) ... Setting up libtool (2.4.7-5) ... Setting up libarchive13:i386 (3.6.2-1) ... Setting up libedit2:i386 (3.1-20221030-2) ... Setting up libreadline8:i386 (8.2-1.3) ... Setting up libobjc4:i386 (12.2.0-14) ... Setting up libnss3:i386 (2:3.87.1-1) ... Setting up libc++1-14:i386 (1:14.0.6-12) ... Setting up libldap-2.5-0:i386 (2.5.13+dfsg-5) ... Setting up libc++-14-dev:i386 (1:14.0.6-12) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libnlopt-cxx-dev:i386 (2.7.1-5) ... Setting up libxml2-dev:i386 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libbamtools-dev:i386 (2.5.2+dfsg-4) ... Setting up libbam-dev (0.1.19+dfsg-6) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libllvm14:i386 (1:14.0.6-12) ... Setting up libobjc-12-dev:i386 (12.2.0-14) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libcurl4:i386 (7.88.1-10+deb12u4) ... Setting up lynx (2.9.0dev.12-1) ... update-alternatives: using /usr/bin/lynx to provide /usr/bin/www-browser (www-browser) in auto mode Setting up llvm-14-linker-tools (1:14.0.6-12) ... Setting up libc++-dev:i386 (1:14.0-55.7~deb12u1) ... Setting up libtinfo-dev:i386 (6.4-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:i386 (3.11.2-6) ... Setting up nss-plugin-pem:i386 (1.0.8+1-1) ... Setting up libclang1-14 (1:14.0.6-12) ... Setting up libcurl3-gnutls:i386 (7.88.1-10+deb12u4) ... Setting up rubygems-integration (1.18) ... Setting up libcurl4-gnutls-dev:i386 (7.88.1-10+deb12u4) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up llvm-14-runtime (1:14.0.6-12) ... Setting up llvm-runtime:i386 (1:14.0-55.7~deb12u1) ... Setting up libclang-common-14-dev (1:14.0.6-12) ... Setting up libclang-cpp14 (1:14.0.6-12) ... Setting up libcurl3-nss:i386 (7.88.1-10+deb12u4) ... Setting up cmake (3.25.1-1) ... Setting up libpython3-stdlib:i386 (3.11.2-1+b1) ... Setting up llvm-14 (1:14.0.6-12) ... Setting up python3.11 (3.11.2-6) ... Setting up libhts3:i386 (1.16+ds-3) ... Setting up clang-14 (1:14.0.6-12) ... Setting up libhts-dev:i386 (1.16+ds-3) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up llvm (1:14.0-55.7~deb12u1) ... Setting up clang-format-14 (1:14.0.6-12) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-3) ... Setting up dh-python (5.20230130+deb12u1) ... Setting up clang-format:i386 (1:14.0-55.7~deb12u1) ... Setting up clang-tools-14 (1:14.0.6-12) ... Setting up python3-joblib (1.2.0-4) ... Setting up python3-all (3.11.2-1+b1) ... Setting up python3-yaml (6.0-3+b2) ... Setting up python3-pygments (2.14.0+dfsg-1) ... Setting up clang-tidy-14 (1:14.0.6-12) ... Setting up clang-tools:i386 (1:14.0-55.7~deb12u1) ... Setting up llvm-14-tools (1:14.0.6-12) ... Setting up clang-tidy (1:14.0-55.7~deb12u1) ... Setting up llvm-14-dev (1:14.0.6-12) ... Setting up llvm-dev (1:14.0-55.7~deb12u1) ... Setting up rake (13.0.6-3) ... Setting up ruby3.1 (3.1.2-7) ... Setting up ruby-sdbm:i386 (1.0.0-5+b1) ... Setting up libruby3.1:i386 (3.1.2-7) ... Setting up libruby:i386 (1:3.1) ... Setting up ruby (1:3.1) ... Setting up ruby-asciidoctor (2.0.18-2) ... Setting up asciidoctor (2.0.18-2) ... Setting up ruby-rubygems (3.3.15-2) ... Processing triggers for libc-bin (2.36-9+deb12u3) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/spades-3.15.5+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../spades_3.15.5+dfsg-2_source.changes dpkg-buildpackage: info: source package spades dpkg-buildpackage: info: source version 3.15.5+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --with python3 --sourcedirectory=assembler/src --buildsystem=cmake debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg' dh_auto_clean find . -name "*.pyc" -delete rm -rf /build/reproducible-path/spades-3.15.5+dfsg/debian/man_src/*.html /build/reproducible-path/spades-3.15.5+dfsg/debian/man_src/*.? rm -rf /build/reproducible-path/spades-3.15.5+dfsg/debian/man make[1]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg' dh_autoreconf_clean -O--sourcedirectory=assembler/src -O--buildsystem=cmake debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg' dh_clean -X.orig make[1]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg' debian/rules binary dh binary --with python3 --sourcedirectory=assembler/src --buildsystem=cmake dh_update_autotools_config -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_autoreconf -O--sourcedirectory=assembler/src -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg' dh_auto_configure -- -DBoost_NO_BOOST_CMAKE=TRUE cd obj-i686-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/i386-linux-gnu -DBoost_NO_BOOST_CMAKE=TRUE ../assembler/src CMake Warning (dev) in CMakeLists.txt: No project() command is present. The top-level CMakeLists.txt file must contain a literal, direct call to the project() command. Add a line of code such as project(ProjectName) near the top of the file, but after cmake_minimum_required(). CMake is pretending there is a "project(Project)" command on the first line. This warning is for project developers. Use -Wno-dev to suppress it. -- The C compiler identification is GNU 12.2.0 -- The CXX compiler identification is GNU 12.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Found ZLIB: /usr/lib/i386-linux-gnu/libz.so (found version "1.2.13") -- Found BZip2: /usr/lib/i386-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Looking for wsyncup in /usr/lib/i386-linux-gnu/libncurses.so -- Looking for wsyncup in /usr/lib/i386-linux-gnu/libncurses.so - found -- Looking for wsyncup in /usr/lib/i386-linux-gnu/libcurses.so -- Looking for wsyncup in /usr/lib/i386-linux-gnu/libcurses.so - found -- Found Boost: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include (found version "1.63.0") Making Release Configuration... Building SPAdes from N/A, sha: N/A -- Override standard malloc (MI_OVERRIDE=ON) -- Enable abort() calls on memory allocation failure (MI_XMALLOC=ON) -- Enable printing of error and warning messages by default (MI_SHOW_ERRORS=ON) -- Use the C++ compiler to compile (MI_USE_CXX=ON) -- -- Library base name: mimalloc-none -- Build type : none -- Compiler : /usr/bin/c++ -- Install directory: /usr/lib/mimalloc-1.6 -- Build targets : object -- -- Looking for open -- Looking for open - found -- Looking for execinfo.h -- Looking for execinfo.h - found -- Looking for signal.h -- Looking for signal.h - found -- Looking for sys/stat.h -- Looking for sys/stat.h - found -- Looking for cxxabi.h -- Looking for cxxabi.h - not found -- Looking for dlfcn.h -- Looking for dlfcn.h - found -- Looking for mach/mach.h -- Looking for mach/mach.h - not found -- Looking for link.h -- Looking for link.h - found -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for sys/mman.h -- Looking for sys/mman.h - found -- Looking for fcntl.h -- Looking for fcntl.h - found -- Looking for malloc/malloc.h -- Looking for malloc/malloc.h - not found -- Looking for pthread.h -- Looking for pthread.h - found -- Looking for sys/time.h -- Looking for sys/time.h - found -- Looking for sys/resource.h -- Looking for sys/resource.h - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include -- Looking for futimens -- Looking for futimens - found -- Looking for futimes -- Looking for futimes - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for getpagesize -- Looking for getpagesize - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for mallinfo -- Looking for mallinfo - found -- Looking for mallctl -- Looking for mallctl - not found -- Looking for malloc_zone_statistics -- Looking for malloc_zone_statistics - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Looking for pthread_getspecific in pthread -- Looking for pthread_getspecific in pthread - found -- Looking for pthread_rwlock_init in pthread -- Looking for pthread_rwlock_init in pthread - found -- Looking for pthread_mutex_lock in pthread -- Looking for pthread_mutex_lock in pthread - found -- Looking for dlopen in dl -- Looking for dlopen in dl - found -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Performing Test HAVE_FFI_CALL -- Performing Test HAVE_FFI_CALL - Success -- Found FFI: /usr/lib/i386-linux-gnu/libffi.so -- Performing Test Terminfo_LINKABLE -- Performing Test Terminfo_LINKABLE - Success -- Found Terminfo: /usr/lib/i386-linux-gnu/libtinfo.so -- Found LibXml2: /usr/lib/i386-linux-gnu/libxml2.so (found version "2.9.14") -- Looking for include file endian.h -- Looking for include file endian.h - found -- Looking for include file inttypes.h -- Looking for include file inttypes.h - found -- Looking for include file stdint.h -- Looking for include file stdint.h - found -- Looking for include file strings.h -- Looking for include file strings.h - found -- Looking for include file sys/types.h -- Looking for include file sys/types.h - found -- Looking for include file sys/param.h -- Looking for include file sys/param.h - found -- Looking for include file sys/sysctl.h -- Looking for include file sys/sysctl.h - not found -- Looking for include file emmintrin.h -- Looking for include file emmintrin.h - found -- Looking for include file pmmintrin.h -- Looking for include file pmmintrin.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for chmod -- Looking for chmod - found -- Looking for fseeko -- Looking for fseeko - found -- Looking for fstat -- Looking for fstat - found -- Looking for getcwd -- Looking for getcwd - found -- Looking for getpid -- Looking for getpid - found -- Looking for mkstemp -- Looking for mkstemp - found -- Looking for popen -- Looking for popen - found -- Looking for putenv -- Looking for putenv - found -- Looking for stat -- Looking for stat - found -- Looking for strcasecmp -- Looking for strcasecmp - found -- Looking for sysctl -- Looking for sysctl - not found -- Looking for times -- Looking for times - found -- Looking for erfc -- Looking for erfc - not found CMake Deprecation Warning at /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/googletest/CMakeLists.txt:4 (cmake_minimum_required): Compatibility with CMake < 2.8.12 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. CMake Deprecation Warning at /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/googletest/googletest/CMakeLists.txt:56 (cmake_minimum_required): Compatibility with CMake < 2.8.12 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Found PythonInterp: /usr/bin/python3 (found version "3.11.2") CMake Deprecation Warning at projects/mts/CMakeLists.txt:8 (cmake_minimum_required): Compatibility with CMake < 2.8.12 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu make[1]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg' dh_auto_build -- all debruijn_test include_test cd obj-i686-linux-gnu && make -j16 "INSTALL=install --strip-program=true" all debruijn_test include_test VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -B/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/CMakeFiles /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make -f ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/build.make ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/depend make -f ext/bamtools/api/CMakeFiles/BamTools.dir/build.make ext/bamtools/api/CMakeFiles/BamTools.dir/depend make -f ext/cppformat/CMakeFiles/format.dir/build.make ext/cppformat/CMakeFiles/format.dir/depend make -f ext/getopt_pp/CMakeFiles/getopt_pp.dir/build.make ext/getopt_pp/CMakeFiles/getopt_pp.dir/depend make -f ext/llvm/CMakeFiles/llvm-support.dir/build.make ext/llvm/CMakeFiles/llvm-support.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-3.15.5+dfsg/assembler/src /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/DependInfo.cmake --color= make -f ext/gqf/CMakeFiles/gqf.dir/build.make ext/gqf/CMakeFiles/gqf.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make -f ext/edlib/CMakeFiles/edlib.dir/build.make ext/edlib/CMakeFiles/edlib.dir/depend cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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--color= make -f ext/gfa1/CMakeFiles/gfa1.dir/build.make ext/gfa1/CMakeFiles/gfa1.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-3.15.5+dfsg/assembler/src /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/DependInfo.cmake --color= make -f ext/easel/CMakeFiles/easel.dir/build.make ext/easel/CMakeFiles/easel.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-3.15.5+dfsg/assembler/src /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gqf /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/gqf /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/gqf/CMakeFiles/gqf.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-3.15.5+dfsg/assembler/src /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/edlib /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/edlib /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/edlib/CMakeFiles/edlib.dir/DependInfo.cmake --color= make -f 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/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-3.15.5+dfsg/assembler/src /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gfa1 /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/gfa1 /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/gfa1/CMakeFiles/gfa1.dir/DependInfo.cmake --color= make -f ext/mimalloc/CMakeFiles/mimalloc-obj.dir/build.make ext/mimalloc/CMakeFiles/mimalloc-obj.dir/depend make -f common/io/binary/CMakeFiles/binary_io.dir/build.make common/io/binary/CMakeFiles/binary_io.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-3.15.5+dfsg/assembler/src 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'/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make -f common/utils/CMakeFiles/version.dir/build.make common/utils/CMakeFiles/version.dir/build make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make -f projects/spaligner/CMakeFiles/mapping_printer.dir/build.make projects/spaligner/CMakeFiles/mapping_printer.dir/build make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 0%] Building CXX object ext/getopt_pp/CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make -f ext/easel/CMakeFiles/easel.dir/build.make ext/easel/CMakeFiles/easel.dir/build [ 0%] Building CXX object ext/cppformat/CMakeFiles/format.dir/format.cc.o [ 0%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/AffineAlignment.cpp.o [ 0%] Building C object ext/gfa1/CMakeFiles/gfa1.dir/gfa.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 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/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/gfa1/CMakeFiles/gfa1.dir/gfa.c.o -MF CMakeFiles/gfa1.dir/gfa.c.o.d -o CMakeFiles/gfa1.dir/gfa.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gfa1/gfa.c [ 0%] Building CXX object ext/edlib/CMakeFiles/edlib.dir/edlib.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/cppformat && /usr/bin/c++ -DFMT_USE_FILE_DESCRIPTORS=1 -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/cppformat -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -Wextra -pedantic -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/cppformat/CMakeFiles/format.dir/format.cc.o -MF CMakeFiles/format.dir/format.cc.o.d -o CMakeFiles/format.dir/format.cc.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/cppformat/format.cc [ 0%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/getopt_pp && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/getopt_pp/CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o -MF CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o.d -o CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/getopt_pp/getopt_pp.cpp [ 1%] Building C object ext/gqf/CMakeFiles/gqf.dir/gqf.c.o [ 1%] Building CXX object ext/googletest/googletest/CMakeFiles/gtest.dir/src/gtest-all.cc.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o -MF CMakeFiles/BamTools.dir/BamAlignment.cpp.o.d -o CMakeFiles/BamTools.dir/BamAlignment.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/BamAlignment.cpp cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/gqf && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/gqf/CMakeFiles/gqf.dir/gqf.c.o -MF CMakeFiles/gqf.dir/gqf.c.o.d -o CMakeFiles/gqf.dir/gqf.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gqf/gqf.c make[4]: Entering directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 1%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/APFloat.cpp.o [ 1%] Building CXX object common/modules/coverage_model/CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/edlib && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/edlib/CMakeFiles/edlib.dir/edlib.cpp.o -MF CMakeFiles/edlib.dir/edlib.cpp.o.d -o CMakeFiles/edlib.dir/edlib.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/edlib/edlib.cpp cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/googletest/googletest && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/googletest/googletest -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -Wshadow -Werror -Wno-error=dangling-else -DGTEST_HAS_PTHREAD=1 -fexceptions -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wno-deprecated -O2 -std=c++14 -MD -MT ext/googletest/googletest/CMakeFiles/gtest.dir/src/gtest-all.cc.o -MF CMakeFiles/gtest.dir/src/gtest-all.cc.o.d -o CMakeFiles/gtest.dir/src/gtest-all.cc.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/googletest/googletest/src/gtest-all.cc cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 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/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/modules/coverage_model && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT common/modules/coverage_model/CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o -MF 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/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT common/utils/CMakeFiles/version.dir/version.cpp.o -MF CMakeFiles/version.dir/version.cpp.o.d -o CMakeFiles/version.dir/version.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/version.cpp cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/mimalloc && /usr/bin/c++ -DMI_MALLOC_OVERRIDE -DMI_MALLOC_OVERRIDE_GLIBC -DMI_SHOW_ERRORS=1 -DMI_XMALLOC=1 -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -Wno-deprecated -O2 -Wall -Wextra -Wno-unknown-pragmas -fvisibility=hidden -Wno-invalid-memory-model -ftls-model=initial-exec -std=gnu++17 -MD -MT ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o -MF CMakeFiles/mimalloc-obj.dir/src/static.c.o.d -o CMakeFiles/mimalloc-obj.dir/src/static.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/paired_info && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT common/paired_info/CMakeFiles/paired_info.dir/distance_estimation.cpp.o -MF CMakeFiles/paired_info.dir/distance_estimation.cpp.o.d -o CMakeFiles/paired_info.dir/distance_estimation.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp [ 2%] Building CXX object common/io/binary/CMakeFiles/binary_io.dir/graph_pack.cpp.o [ 2%] Building CXX object projects/spaligner/CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/io/binary && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT common/io/binary/CMakeFiles/binary_io.dir/graph_pack.cpp.o -MF CMakeFiles/binary_io.dir/graph_pack.cpp.o.d -o CMakeFiles/binary_io.dir/graph_pack.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/projects/spaligner && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/projects/spaligner -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT projects/spaligner/CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o -MF CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o.d -o CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/projects/spaligner/mapping_printer.cpp [ 2%] Building C object ext/easel/CMakeFiles/easel.dir/easel.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/easel.c.o -MF CMakeFiles/easel.dir/easel.c.o.d -o CMakeFiles/easel.dir/easel.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/easel.c [ 3%] Linking CXX static library libversion.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/utils && /usr/bin/cmake -P CMakeFiles/version.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/version.dir/link.txt --verbose=1 In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gfa1/gfa.c:1093: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gfa1/kdq.h:9:24: error: width of 'front' exceeds its type 9 | size_t front:58, bits:6, count, mask; \ | ^~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gfa1/kdq.h:93:9: note: in expansion of macro '__KDQ_TYPE' 93 | __KDQ_TYPE(type) \ | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gfa1/kdq.h:104:24: note: in expansion of macro 'KDQ_INIT2' 104 | #define KDQ_INIT(type) KDQ_INIT2(type, static inline klib_unused) | ^~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gfa1/gfa.c:1094:1: note: in expansion of macro 'KDQ_INIT' 1094 | KDQ_INIT(uint64_t) | ^~~~~~~~ /usr/bin/ar qc libversion.a CMakeFiles/version.dir/version.cpp.o /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gqf/gqf.c: In function 'qf_deserialize': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:1606:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1606 | fread(qf->metadata, sizeof(qfmetadata), 1, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:1615:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1615 | fread(qf->blocks, qf->metadata->size, 1, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/bin/ranlib libversion.a make[4]: *** [ext/gfa1/CMakeFiles/gfa1.dir/build.make:79: ext/gfa1/CMakeFiles/gfa1.dir/gfa.c.o] Error 1 make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make[3]: *** [CMakeFiles/Makefile2:1536: ext/gfa1/CMakeFiles/gfa1.dir/all] Error 2 make[3]: *** Waiting for unfinished jobs.... [ 3%] Building CXX object ext/cppformat/CMakeFiles/format.dir/posix.cc.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/cppformat && /usr/bin/c++ -DFMT_USE_FILE_DESCRIPTORS=1 -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/cppformat -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wall -Wextra -pedantic -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/cppformat/CMakeFiles/format.dir/posix.cc.o -MF CMakeFiles/format.dir/posix.cc.o.d -o CMakeFiles/format.dir/posix.cc.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/cppformat/posix.cc make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 3%] Built target version [ 4%] Building C object ext/easel/CMakeFiles/easel.dir/esl_alphabet.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_alphabet.c.o -MF CMakeFiles/easel.dir/esl_alphabet.c.o.d -o CMakeFiles/easel.dir/esl_alphabet.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_alphabet.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_position_index.hpp:14, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_info_updater.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:13, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/edge_index.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:11: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/folly/SmallLocks.h:46:3: error: #error "SmallLocks.h is currently x64-only." 46 | # error "SmallLocks.h is currently x64-only." | ^~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_position_index.hpp:14, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_info_updater.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_multi_index.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.hpp:8, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/projects/spaligner/mapping_printer.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/projects/spaligner/mapping_printer.cpp:7: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/folly/SmallLocks.h:46:3: error: #error "SmallLocks.h is currently x64-only." 46 | # error "SmallLocks.h is currently x64-only." | ^~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:28: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/region.c: In function 'void _mi_mem_collect(mi_os_tld_t*)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/region.c:466:15: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'mem_region_t' {aka 'struct mem_region_s'} with no trivial copy-assignment; use value-initialization instead [-Wclass-memaccess] 466 | memset(®ions[i], 0, sizeof(mem_region_t)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/region.c:89:16: note: 'mem_region_t' {aka 'struct mem_region_s'} declared here 89 | typedef struct mem_region_s { | ^~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:31: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/heap.c: In function 'mi_heap_t* mi_heap_new()': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/heap.c:196:9: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'mi_heap_t' {aka 'struct mi_heap_s'} with no trivial copy-assignment [-Wclass-memaccess] 196 | memcpy(heap, &_mi_heap_empty, sizeof(mi_heap_t)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/include/mimalloc-internal.h:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:17: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/include/mimalloc-types.h:340:8: note: 'mi_heap_t' {aka 'struct mi_heap_s'} declared here 340 | struct mi_heap_s { | ^~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc.c:15, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:32: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c: At global scope: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:71:42: note: in expansion of macro 'MI_FORWARD1' 71 | void* malloc(size_t size) MI_FORWARD1(mi_malloc, size); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:72:42: note: in expansion of macro 'MI_FORWARD2' 72 | void* calloc(size_t size, size_t n) MI_FORWARD2(mi_calloc, size, n); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:73:42: note: in expansion of macro 'MI_FORWARD2' 73 | void* realloc(void* p, size_t newsize) MI_FORWARD2(mi_realloc, p, newsize); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:95:55: note: in expansion of macro 'MI_FORWARD1' 95 | void* operator new(std::size_t n) noexcept(false) MI_FORWARD1(mi_new,n); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:96:55: note: in expansion of macro 'MI_FORWARD1' 96 | void* operator new[](std::size_t n) noexcept(false) MI_FORWARD1(mi_new,n); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:167:42: note: in expansion of macro 'MI_FORWARD2' 167 | void* reallocf(void* p, size_t newsize) MI_FORWARD2(mi_reallocf,p,newsize); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:168:42: note: in expansion of macro 'MI_FORWARD1' 168 | size_t malloc_size(const void* p) MI_FORWARD1(mi_usable_size,p); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:170:42: note: in expansion of macro 'MI_FORWARD1' 170 | size_t malloc_usable_size(void *p) MI_FORWARD1(mi_usable_size,p); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:194:53: note: in expansion of macro 'MI_FORWARD1' 194 | void* __libc_malloc(size_t size) MI_FORWARD1(mi_malloc,size); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:195:53: note: in expansion of macro 'MI_FORWARD2' 195 | void* __libc_calloc(size_t count, size_t size) MI_FORWARD2(mi_calloc,count,size); | ^~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:196:53: note: in expansion of macro 'MI_FORWARD2' 196 | void* __libc_realloc(void* p, size_t size) MI_FORWARD2(mi_realloc,p,size); | ^~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:38: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/init.c: In function 'bool _mi_heap_init()': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/init.c:192:11: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'mi_heap_t' {aka 'struct mi_heap_s'} with no trivial copy-assignment [-Wclass-memaccess] 192 | memcpy(heap, &_mi_heap_empty, sizeof(*heap)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/include/mimalloc-types.h:340:8: note: 'mi_heap_t' {aka 'struct mi_heap_s'} declared here 340 | struct mi_heap_s { | ^~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:39: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/options.c: At global scope: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/mimalloc/src/options.c:22:41: warning: conversion from 'long long unsigned int' to 'uintptr_t' {aka 'unsigned int'} changes value from '18446744073709551615' to '4294967295' [-Woverflow] 22 | static uintptr_t mi_max_error_count = -1ULL; // stop outputting errors after this | ^~~~~ [ 4%] Building C object ext/easel/CMakeFiles/easel.dir/esl_avx.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_avx.c.o -MF CMakeFiles/easel.dir/esl_avx.c.o.d -o CMakeFiles/easel.dir/esl_avx.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_avx.c [ 4%] Building C object ext/easel/CMakeFiles/easel.dir/esl_buffer.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_buffer.c.o -MF CMakeFiles/easel.dir/esl_buffer.c.o.d -o CMakeFiles/easel.dir/esl_buffer.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_buffer.c [ 4%] Building C object ext/easel/CMakeFiles/easel.dir/esl_cluster.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_cluster.c.o -MF CMakeFiles/easel.dir/esl_cluster.c.o.d -o CMakeFiles/easel.dir/esl_cluster.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_cluster.c [ 4%] Building C object ext/easel/CMakeFiles/easel.dir/esl_composition.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_composition.c.o -MF CMakeFiles/easel.dir/esl_composition.c.o.d -o CMakeFiles/easel.dir/esl_composition.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_composition.c [ 4%] Building CXX object common/io/binary/CMakeFiles/binary_io.dir/genomic_info.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/io/binary && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT common/io/binary/CMakeFiles/binary_io.dir/genomic_info.cpp.o -MF CMakeFiles/binary_io.dir/genomic_info.cpp.o.d -o CMakeFiles/binary_io.dir/genomic_info.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/genomic_info.cpp [ 5%] Building C object ext/easel/CMakeFiles/easel.dir/esl_dirichlet.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_dirichlet.c.o -MF CMakeFiles/easel.dir/esl_dirichlet.c.o.d -o CMakeFiles/easel.dir/esl_dirichlet.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_dirichlet.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:13, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp:1: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'bool omnigraph::ReclaimingIdDistributor::occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:34:30: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 34 | return !free_map_[at - bias_]; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::acquire(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:39:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 39 | free_map_[at - bias_] = false; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::release(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:44:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 44 | free_map_[at - bias_] = true; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In constructor 'omnigraph::ReclaimingIdDistributor::id_iterator::id_iterator(uint64_t, const std::vector&, uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:58:44: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 58 | if (cur_ != NPOS && map_.get()[cur_]) | ^~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'uint64_t omnigraph::ReclaimingIdDistributor::id_iterator::next_occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:70:31: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 70 | for (size_t i = n + 1; i < map_.get().size(); ++i) { | ~~^~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/projects/spaligner/mapping_printer.hpp:10: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'bool omnigraph::ReclaimingIdDistributor::occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:34:30: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 34 | return !free_map_[at - bias_]; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::acquire(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:39:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 39 | free_map_[at - bias_] = false; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::release(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:44:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 44 | free_map_[at - bias_] = true; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In constructor 'omnigraph::ReclaimingIdDistributor::id_iterator::id_iterator(uint64_t, const std::vector&, uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:58:44: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 58 | if (cur_ != NPOS && map_.get()[cur_]) | ^~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'uint64_t omnigraph::ReclaimingIdDistributor::id_iterator::next_occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:70:31: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 70 | for (size_t i = n + 1; i < map_.get().size(); ++i) { | ~~^~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'size_t omnigraph::impl::Id::hash() const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:52:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 52 | size_t hash() const noexcept { return id_; } | ^~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'size_t omnigraph::impl::Id::hash() const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:52:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 52 | size_t hash() const noexcept { return id_; } | ^~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:7: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'bool omnigraph::ReclaimingIdDistributor::occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:34:30: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 34 | return !free_map_[at - bias_]; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::acquire(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:39:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 39 | free_map_[at - bias_] = false; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::release(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:44:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 44 | free_map_[at - bias_] = true; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In constructor 'omnigraph::ReclaimingIdDistributor::id_iterator::id_iterator(uint64_t, const std::vector&, uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:58:44: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 58 | if (cur_ != NPOS && map_.get()[cur_]) | ^~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'uint64_t omnigraph::ReclaimingIdDistributor::id_iterator::next_occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:70:31: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 70 | for (size_t i = n + 1; i < map_.get().size(); ++i) { | ~~^~~ [ 5%] Building C object ext/easel/CMakeFiles/easel.dir/esl_distance.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_distance.c.o -MF CMakeFiles/easel.dir/esl_distance.c.o.d -o CMakeFiles/easel.dir/esl_distance.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_distance.c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'size_t omnigraph::impl::Id::hash() const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:52:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 52 | size_t hash() const noexcept { return id_; } | ^~~ [ 5%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o -MF CMakeFiles/BamTools.dir/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/BamMultiReader.cpp [ 5%] Linking C static library libgqf.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/gqf && /usr/bin/cmake -P CMakeFiles/gqf.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/gqf && /usr/bin/cmake -E cmake_link_script CMakeFiles/gqf.dir/link.txt --verbose=1 /usr/bin/ar qc libgqf.a CMakeFiles/gqf.dir/gqf.c.o /usr/bin/ranlib libgqf.a [ 5%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Coverage.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Coverage.cpp.o -MF CMakeFiles/ConsensusCore.dir/Coverage.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Coverage.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Coverage.cpp make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 5%] Built target gqf [ 5%] Building C object ext/easel/CMakeFiles/easel.dir/esl_dmatrix.c.o [ 5%] Building CXX object common/paired_info/CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_dmatrix.c.o -MF CMakeFiles/easel.dir/esl_dmatrix.c.o.d -o CMakeFiles/easel.dir/esl_dmatrix.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_dmatrix.c cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/paired_info && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT common/paired_info/CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o -MF CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o.d -o CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence_tools.hpp:16, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/debruijn_data.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp: In member function 'size_t Sequence::find(const Sequence&, size_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp:357:12: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '18446744073709551615' to '4294967295' [-Woverflow] 357 | return -1ULL; | ^~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence_tools.hpp:16, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/debruijn_data.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp: In member function 'size_t Sequence::find(const Sequence&, size_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp:357:12: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '18446744073709551615' to '4294967295' [-Woverflow] 357 | return -1ULL; | ^~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index_traits.hpp:8, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map.hpp:16, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_multi_index.hpp:10: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/kmers/mmapped_reader.hpp: In constructor 'MMappedReader::MMappedReader(const std::string&, bool, size_t, off_t, size_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/kmers/mmapped_reader.hpp:116:23: warning: comparison is always true due to limited range of data type [-Wtype-limits] 116 | if (BlockSize != -1ULL && BlockSize < FileSize) { | ~~~~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence_tools.hpp:16, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/debruijn_data.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp: In member function 'size_t Sequence::find(const Sequence&, size_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp:357:12: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '18446744073709551615' to '4294967295' [-Woverflow] 357 | return -1ULL; | ^~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index.hpp:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h: In function 'uint64_t boomphf::fastrange64(uint64_t, uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h:355:25: error: '__uint128_t' was not declared in this scope; did you mean '__uint8_t'? 355 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64); | ^~~~~~~~~~~ | __uint8_t /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h:355:37: error: expected ')' before 'word' 355 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64); | ~ ^~~~ | ) /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h:355:66: error: expected ')' before ';' token 355 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64); | ~ ^ | ) [ 5%] Linking CXX static library libgetopt_pp.a [ 5%] Building C object ext/easel/CMakeFiles/easel.dir/esl_dsqdata.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/getopt_pp && /usr/bin/cmake -P CMakeFiles/getopt_pp.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_dsqdata.c.o -MF CMakeFiles/easel.dir/esl_dsqdata.c.o.d -o CMakeFiles/easel.dir/esl_dsqdata.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_dsqdata.c cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/getopt_pp && /usr/bin/cmake -E cmake_link_script CMakeFiles/getopt_pp.dir/link.txt --verbose=1 /usr/bin/ar qc libgetopt_pp.a CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o /usr/bin/ranlib libgetopt_pp.a make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 5%] Built target getopt_pp [ 5%] Building CXX object common/paired_info/CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/paired_info && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -std=gnu++14 -MD -MT common/paired_info/CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o -MF CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o.d -o CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index_traits.hpp:8, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map.hpp:16, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_position_index.hpp:11: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/kmers/mmapped_reader.hpp: In constructor 'MMappedReader::MMappedReader(const std::string&, bool, size_t, off_t, size_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/kmers/mmapped_reader.hpp:116:23: warning: comparison is always true due to limited range of data type [-Wtype-limits] 116 | if (BlockSize != -1ULL && BlockSize < FileSize) { | ~~~~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index.hpp:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h: In function 'uint64_t boomphf::fastrange64(uint64_t, uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h:355:25: error: '__uint128_t' was not declared in this scope; did you mean '__uint8_t'? 355 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64); | ^~~~~~~~~~~ | __uint8_t /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h:355:37: error: expected ')' before 'word' 355 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64); | ~ ^~~~ | ) /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/boomphf/BooPHF.h:355:66: error: expected ')' before ';' token 355 | return (uint64_t)(((__uint128_t)word * (__uint128_t)p) >> 64); | ~ ^ | ) [ 5%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Mutation.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Mutation.cpp.o -MF CMakeFiles/ConsensusCore.dir/Mutation.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Mutation.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Mutation.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/kmer_mapper.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:13: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_map.hpp: In member function 'std::size_t debruijn_graph::KMerMap::str_hash::operator()(const char*, std::size_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_map.hpp:22:31: warning: conversion from 'XXH64_hash_t' {aka 'long long unsigned int'} to 'std::size_t' {aka 'unsigned int'} may change value [-Wconversion] 22 | return XXH3_64bits(key, key_size); | ^ [ 6%] Linking CXX static library libedlib.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/edlib && /usr/bin/cmake -P CMakeFiles/edlib.dir/cmake_clean_target.cmake In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:18, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/bwa_sequence_mapper.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.hpp:10: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_map.hpp: In member function 'std::size_t debruijn_graph::KMerMap::str_hash::operator()(const char*, std::size_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_map.hpp:22:31: warning: conversion from 'XXH64_hash_t' {aka 'long long unsigned int'} to 'std::size_t' {aka 'unsigned int'} may change value [-Wconversion] 22 | return XXH3_64bits(key, key_size); | ^ cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/edlib && /usr/bin/cmake -E cmake_link_script CMakeFiles/edlib.dir/link.txt --verbose=1 /usr/bin/ar qc libedlib.a CMakeFiles/edlib.dir/edlib.cpp.o /usr/bin/ranlib libedlib.a make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 6%] Built target edlib [ 6%] Building C object ext/easel/CMakeFiles/easel.dir/esl_exponential.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_exponential.c.o -MF CMakeFiles/easel.dir/esl_exponential.c.o.d -o CMakeFiles/easel.dir/esl_exponential.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_exponential.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_filler.hpp:15, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.hpp:14: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_dijkstra.hpp: In member function 'std::size_t std::hash::operator()(const sensitive_aligner::QueueState&) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_dijkstra.hpp:136:67: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::size_t' {aka 'unsigned int'} may change value [-Wconversion] 136 | hash_size_t_pair(k.gs.e.int_id(), k.gs.start_pos), | ~~~~~~~~~~~~~^~ [ 8%] Building C object ext/easel/CMakeFiles/easel.dir/esl_fileparser.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_fileparser.c.o -MF CMakeFiles/easel.dir/esl_fileparser.c.o.d -o CMakeFiles/easel.dir/esl_fileparser.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c: In function 'esl_fileparser_NextLine': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:278:21: warning: comparison between pointer and zero character constant [-Wpointer-compare] 278 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:278:14: note: did you mean to dereference the pointer? 278 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c: In function 'esl_fileparser_NextLinePeeked': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:359:17: warning: comparison between pointer and zero character constant [-Wpointer-compare] 359 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:359:10: note: did you mean to dereference the pointer? 359 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::int_id(EdgeId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp:34:13: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:698:67: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 698 | size_t int_id(EdgeId edge) const noexcept { return edge.int_id(); } | ~~~~~~~~~~~^~ [ 8%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gamma.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gamma.c.o -MF CMakeFiles/easel.dir/esl_gamma.c.o.d -o CMakeFiles/easel.dir/esl_gamma.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_gamma.c [ 8%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gencode.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gencode.c.o -MF CMakeFiles/easel.dir/esl_gencode.c.o.d -o CMakeFiles/easel.dir/esl_gencode.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_gencode.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/trusted_paths.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:18: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp: In member function 'size_t path_extend::BidirectionalPath::GetId() const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:572:16: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 572 | return id_; | ^~~ [ 8%] Building C object ext/easel/CMakeFiles/easel.dir/esl_getopts.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_getopts.c.o -MF CMakeFiles/easel.dir/esl_getopts.c.o.d -o CMakeFiles/easel.dir/esl_getopts.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_getopts.c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In member function 'virtual bool io::binary::FullPackIO::BinRead(std::istream&, Type&)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:363:10: warning: unused variable 'loaded' [-Wunused-variable] 363 | bool loaded = base::BinRead(is, gp); | ^~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedVertex; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:15: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 257 | resize(id_distributor_.size() + bias_); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedEdge; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:35: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::int_id(EdgeId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/rna/ss_coverage.hpp:176:9: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:698:67: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 698 | size_t int_id(EdgeId edge) const noexcept { return edge.int_id(); } | ~~~~~~~~~~~^~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:13, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.cpp:1: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'bool omnigraph::ReclaimingIdDistributor::occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:34:30: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 34 | return !free_map_[at - bias_]; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::acquire(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:39:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 39 | free_map_[at - bias_] = false; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::release(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:44:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 44 | free_map_[at - bias_] = true; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In constructor 'omnigraph::ReclaimingIdDistributor::id_iterator::id_iterator(uint64_t, const std::vector&, uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:58:44: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 58 | if (cur_ != NPOS && map_.get()[cur_]) | ^~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'uint64_t omnigraph::ReclaimingIdDistributor::id_iterator::next_occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:70:31: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 70 | for (size_t i = n + 1; i < map_.get().size(); ++i) { | ~~^~~ [ 8%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gev.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gev.c.o -MF CMakeFiles/easel.dir/esl_gev.c.o.d -o CMakeFiles/easel.dir/esl_gev.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_gev.c [ 8%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamReader.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/BamReader.cpp.o -MF CMakeFiles/BamTools.dir/BamReader.cpp.o.d -o CMakeFiles/BamTools.dir/BamReader.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/BamReader.cpp /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::int_id(EdgeId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/pacbio_read_structures.hpp:102:34: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:698:67: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 698 | size_t int_id(EdgeId edge) const noexcept { return edge.int_id(); } | ~~~~~~~~~~~^~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::int_id(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:797:37: required from 'std::string omnigraph::GraphCore::str(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; std::string = std::__cxx11::basic_string; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/paths/path_processor.hpp:213:9: required from 'int omnigraph::PathProcessor::Process(VertexId, size_t, size_t, Callback&, size_t) const [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp:30:27: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:699:73: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 699 | size_t int_id(VertexId vertex) const noexcept { return vertex.int_id(); } | ~~~~~~~~~~~~~^~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:6, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:64:32: required from 'void llvm::PointerIntPair::setPointer(PointerTy) & [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:60:25: required from 'void adt::impl::SmallPODVectorData::reset() [with T = omnigraph::de::PointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:259:20: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage() [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:387:5: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = omnigraph::EdgesPositionHandler]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:210:45: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] 101 | bool loaded = io.Load(basename, component); | ^~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = debruijn_graph::EdgeIndex]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:213:34: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = debruijn_graph::KmerMapper]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:216:35: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = omnigraph::FlankingCoverage]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:219:41: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = omnigraph::EdgesPositionHandler]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:256:45: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] 130 | auto loaded = io.BinRead(is, component); | ^~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = debruijn_graph::EdgeIndex]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:259:34: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = debruijn_graph::KmerMapper]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:262:35: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = omnigraph::FlankingCoverage]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:265:41: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'size_t omnigraph::impl::Id::hash() const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:52:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 52 | size_t hash() const noexcept { return id_; } | ^~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp:16: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp: In instantiation of 'static size_t RuntimeSeq::MaskForLastBucket(size_t) [with unsigned int max_size_ = 128; T = long long unsigned int; size_t = unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:245:76: required from 'RuntimeSeq::RuntimeSeq(size_t, const T*) [with unsigned int max_size_ = 128; T = long long unsigned int; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_map.hpp:52:58: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:148:24: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 148 | return nr != 0 ? (((T) 1) << (nr << 1)) - 1 : -1ul; | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 9%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gumbel.c.o [ 9%] Building C object ext/easel/CMakeFiles/easel.dir/esl_heap.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_heap.c.o -MF CMakeFiles/easel.dir/esl_heap.c.o.d -o CMakeFiles/easel.dir/esl_heap.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_heap.c cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gumbel.c.o -MF CMakeFiles/easel.dir/esl_gumbel.c.o.d -o CMakeFiles/easel.dir/esl_gumbel.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_gumbel.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp:16: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp: In instantiation of 'static size_t RuntimeSeq::MaskForLastBucket(size_t) [with unsigned int max_size_ = 128; T = long long unsigned int; size_t = unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:245:76: required from 'RuntimeSeq::RuntimeSeq(size_t, const T*) [with unsigned int max_size_ = 128; T = long long unsigned int; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_map.hpp:52:58: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:148:24: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 148 | return nr != 0 ? (((T) 1) << (nr << 1)) - 1 : -1ul; | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo::PointerUnionTraits >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:61:56: required from 'IntType llvm::PointerIntPair::getInt() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData::PointerUnionTraits >*>; Info = llvm::PointerIntPairInfo::PointerUnionTraits >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:81:28: required from 'adt::impl::SmallPODVectorData::size_type adt::impl::SmallPODVectorData::size() const [with T = omnigraph::impl::EdgeId; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:430:47: required from 'adt::SmallPODVector::size_type adt::SmallPODVector::size() const [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:174:76: required from 'size_t omnigraph::PairedVertex::OutgoingEdgeCount() const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:707:93: required from 'size_t omnigraph::GraphCore::OutgoingEdgeCount(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:81:36: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:6, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo::PointerUnionTraits >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:59:57: required from 'PointerTy llvm::PointerIntPair::getPointer() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData::PointerUnionTraits >*>; Info = llvm::PointerIntPairInfo::PointerUnionTraits >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:266:43: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage(const adt::impl::HybridAllocatedStorage&) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:361:7: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ [ 9%] Building C object ext/easel/CMakeFiles/easel.dir/esl_histogram.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_histogram.c.o -MF CMakeFiles/easel.dir/esl_histogram.c.o.d -o CMakeFiles/easel.dir/esl_histogram.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_histogram.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:9, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:13, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.cpp:1: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'bool omnigraph::ReclaimingIdDistributor::occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:34:30: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 34 | return !free_map_[at - bias_]; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::acquire(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:39:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 39 | free_map_[at - bias_] = false; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'void omnigraph::ReclaimingIdDistributor::release(uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:44:22: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 44 | free_map_[at - bias_] = true; | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In constructor 'omnigraph::ReclaimingIdDistributor::id_iterator::id_iterator(uint64_t, const std::vector&, uint64_t)': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:58:44: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'std::vector::size_type' {aka 'unsigned int'} may change value [-Wconversion] 58 | if (cur_ != NPOS && map_.get()[cur_]) | ^~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp: In member function 'uint64_t omnigraph::ReclaimingIdDistributor::id_iterator::next_occupied(uint64_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.hpp:70:31: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 70 | for (size_t i = n + 1; i < map_.get().size(); ++i) { | ~~^~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedVertex; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:15: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 257 | resize(id_distributor_.size() + bias_); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedEdge; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:35: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:64:32: required from 'void llvm::PointerIntPair::setPointer(PointerTy) & [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:60:25: required from 'void adt::impl::SmallPODVectorData::reset() [with T = omnigraph::de::RawPointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:259:20: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage() [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:387:5: required from 'std::pair, G, Traits>::InnerPoint> >::pointer, unsigned int> omnigraph::de::PairedBuffer::InsertOne(typename base::EdgeId, typename base::EdgeId, typename base::InnerPoint) [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; Container = omnigraph::de::unordered_map; typename omnigraph::de::StrongWeakPtr, G, Traits>::InnerPoint> >::pointer = omnigraph::de::Histogram >*; typename omnigraph::de::PairedBufferBase, G, Traits>::InnerPoint = omnigraph::de::RawPointT; typename base::EdgeId = omnigraph::impl::EdgeId; base = omnigraph::de::PairedBufferBase, debruijn_graph::DeBruijnGraph, omnigraph::de::RawPointTraits>; typename base::InnerPoint = omnigraph::de::RawPointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:108:58: required from 'void omnigraph::de::PairedBufferBase::InsertWithConj(EdgeId, EdgeId, InnerPoint) [with Derived = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; EdgeId = omnigraph::impl::EdgeId; InnerPoint = omnigraph::de::RawPointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:66:13: required from 'void omnigraph::de::PairedBufferBase::AddMany(EdgeId, EdgeId, const TH&) [with TH = omnigraph::de::Histogram >; Derived = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; EdgeId = omnigraph::impl::EdgeId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp:71:19: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:64:32: required from 'void llvm::PointerIntPair::setPointer(PointerTy) & [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:60:25: required from 'void adt::impl::SmallPODVectorData::reset() [with T = omnigraph::de::PointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:259:20: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage() [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:387:5: required from 'std::pair, G, Traits>::InnerPoint> >::pointer, unsigned int> omnigraph::de::PairedBuffer::InsertHist(typename base::EdgeId, typename base::EdgeId, const OtherHist&) [with OtherHist = omnigraph::de::Histogram >; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits; Container = omnigraph::de::safe_btree_map; typename omnigraph::de::StrongWeakPtr, G, Traits>::InnerPoint> >::pointer = omnigraph::de::Histogram >*; typename omnigraph::de::PairedBufferBase, G, Traits>::InnerPoint = omnigraph::de::PointT; typename base::EdgeId = omnigraph::impl::EdgeId; base = omnigraph::de::PairedBufferBase, debruijn_graph::DeBruijnGraph, omnigraph::de::PointTraits>]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:125:59: required from 'void omnigraph::de::PairedBufferBase::Merge(EdgeId, EdgeId, const OtherHist&) [with OtherHist = omnigraph::de::Histogram >; Derived = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits; EdgeId = omnigraph::impl::EdgeId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:295:28: required from 'void omnigraph::de::PairedIndex::Merge(Buffer&) [with Buffer = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits; Container = omnigraph::de::safe_btree_map]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp:92:21: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedVertex; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:15: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 257 | resize(id_distributor_.size() + bias_); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedEdge; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:35: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence_tools.hpp:16, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/debruijn_data.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp: In member function 'size_t Sequence::find(const Sequence&, size_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp:357:12: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '18446744073709551615' to '4294967295' [-Woverflow] 357 | return -1ULL; | ^~~~~ [ 9%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o -MF CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o.d -o CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/PairwiseAlignment.cpp /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::int_id(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:797:37: required from 'std::string omnigraph::GraphCore::str(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; std::string = std::__cxx11::basic_string; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/dijkstra/dijkstra_algorithm.hpp:167:9: required from 'void omnigraph::Dijkstra::Run(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; DijkstraSettings = omnigraph::ComposedDijkstraSettings, omnigraph::BoundProcessChecker, omnigraph::BoundPutChecker, omnigraph::UnorientedNeighbourIteratorFactory, unsigned int>; distance_t = unsigned int; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/pac_index.hpp:180:25: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:699:73: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 699 | size_t int_id(VertexId vertex) const noexcept { return vertex.int_id(); } | ~~~~~~~~~~~~~^~ [ 9%] Building C object ext/easel/CMakeFiles/easel.dir/esl_hmm.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_hmm.c.o -MF CMakeFiles/easel.dir/esl_hmm.c.o.d -o CMakeFiles/easel.dir/esl_hmm.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_hmm.c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'size_t omnigraph::impl::Id::hash() const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:52:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 52 | size_t hash() const noexcept { return id_; } | ^~~ [ 9%] Building C object ext/easel/CMakeFiles/easel.dir/esl_hyperexp.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_hyperexp.c.o -MF CMakeFiles/easel.dir/esl_hyperexp.c.o.d -o CMakeFiles/easel.dir/esl_hyperexp.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_hyperexp.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:6, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo::PointerUnionTraits >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:61:56: required from 'IntType llvm::PointerIntPair::getInt() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData::PointerUnionTraits >*>; Info = llvm::PointerIntPairInfo::PointerUnionTraits >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:81:28: required from 'adt::impl::SmallPODVectorData::size_type adt::impl::SmallPODVectorData::size() const [with T = omnigraph::impl::EdgeId; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:430:47: required from 'adt::SmallPODVector::size_type adt::SmallPODVector::size() const [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:174:76: required from 'size_t omnigraph::PairedVertex::OutgoingEdgeCount() const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:707:93: required from 'size_t omnigraph::GraphCore::OutgoingEdgeCount(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:81:36: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo::PointerUnionTraits >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:61:56: required from 'IntType llvm::PointerIntPair::getInt() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData::PointerUnionTraits >*>; Info = llvm::PointerIntPairInfo::PointerUnionTraits >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:81:28: required from 'adt::impl::SmallPODVectorData::size_type adt::impl::SmallPODVectorData::size() const [with T = omnigraph::impl::EdgeId; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:430:47: required from 'adt::SmallPODVector::size_type adt::SmallPODVector::size() const [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:174:76: required from 'size_t omnigraph::PairedVertex::OutgoingEdgeCount() const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:707:93: required from 'size_t omnigraph::GraphCore::OutgoingEdgeCount(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:81:36: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ [ 9%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o -MF CMakeFiles/BamTools.dir/BamWriter.cpp.o.d -o CMakeFiles/BamTools.dir/BamWriter.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/BamWriter.cpp [ 10%] Building C object ext/easel/CMakeFiles/easel.dir/esl_keyhash.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_keyhash.c.o -MF CMakeFiles/easel.dir/esl_keyhash.c.o.d -o CMakeFiles/easel.dir/esl_keyhash.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_keyhash.c [ 11%] Linking CXX static library libformat.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/cppformat && /usr/bin/cmake -P CMakeFiles/format.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/cppformat && /usr/bin/cmake -E cmake_link_script CMakeFiles/format.dir/link.txt --verbose=1 /usr/bin/ar qc libformat.a CMakeFiles/format.dir/format.cc.o CMakeFiles/format.dir/posix.cc.o In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence_tools.hpp:16, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/debruijn_data.hpp:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp: In member function 'size_t Sequence::find(const Sequence&, size_t) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/sequence/sequence.hpp:357:12: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '18446744073709551615' to '4294967295' [-Woverflow] 357 | return -1ULL; | ^~~~~ /usr/bin/ranlib libformat.a make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 11%] Built target format [ 11%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o -MF CMakeFiles/BamTools.dir/SamHeader.cpp.o.d -o CMakeFiles/BamTools.dir/SamHeader.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/SamHeader.cpp make[4]: *** [common/paired_info/CMakeFiles/paired_info.dir/build.make:79: common/paired_info/CMakeFiles/paired_info.dir/distance_estimation.cpp.o] Error 1 make[4]: *** Waiting for unfinished jobs.... [ 11%] Building C object ext/easel/CMakeFiles/easel.dir/esl_mem.c.o [ 12%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_mem.c.o -MF CMakeFiles/easel.dir/esl_mem.c.o.d -o CMakeFiles/easel.dir/esl_mem.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_mem.c cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o -MF CMakeFiles/BamTools.dir/SamProgram.cpp.o.d -o CMakeFiles/BamTools.dir/SamProgram.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/SamProgram.cpp /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:51:23: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 51 | graph.reserve(max_vid, max_eid); | ^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:51:32: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 51 | graph.reserve(max_vid, max_eid); | ^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::vreserved() const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:27:31: required from 'void io::binary::GraphIO::SaveImpl(io::binary::impl::BinOStream&, const Graph&) [with Graph = debruijn_graph::DeBruijnGraph]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:26:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:685:57: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 685 | size_t vreserved() const { return vstorage_.reserved(); } | ~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::ereserved() const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:27:52: required from 'void io::binary::GraphIO::SaveImpl(io::binary::impl::BinOStream&, const Graph&) [with Graph = debruijn_graph::DeBruijnGraph]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:26:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:686:57: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 686 | size_t ereserved() const { return estorage_.reserved(); } | ~~~~~~~~~~~~~~~~~~^~ [ 12%] Building C object ext/easel/CMakeFiles/easel.dir/esl_minimizer.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_minimizer.c.o -MF CMakeFiles/easel.dir/esl_minimizer.c.o.d -o CMakeFiles/easel.dir/esl_minimizer.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_minimizer.c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'void omnigraph::GraphCore::IdStorage::reserve(size_t) [with T = omnigraph::PairedVertex; DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:678:49: required from 'void omnigraph::GraphCore::vreserve(size_t) [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:681:9: required from 'void omnigraph::GraphCore::reserve(size_t, size_t) [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:51:22: required from 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:274:23: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 274 | resize(sz + bias_); | ~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'void omnigraph::GraphCore::IdStorage::reserve(size_t) [with T = omnigraph::PairedEdge; DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:679:49: required from 'void omnigraph::GraphCore::ereserve(size_t) [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:682:9: required from 'void omnigraph::GraphCore::reserve(size_t, size_t) [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:51:22: required from 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:274:23: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] [ 12%] Building C object ext/easel/CMakeFiles/easel.dir/esl_mixgev.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_mixgev.c.o -MF CMakeFiles/easel.dir/esl_mixgev.c.o.d -o CMakeFiles/easel.dir/esl_mixgev.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_mixgev.c make[4]: *** [projects/spaligner/CMakeFiles/mapping_printer.dir/build.make:79: projects/spaligner/CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o] Error 1 make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make[3]: *** [CMakeFiles/Makefile2:2719: projects/spaligner/CMakeFiles/mapping_printer.dir/all] Error 2 /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedVertex; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:15: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 257 | resize(id_distributor_.size() + bias_); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedEdge; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:35: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] [ 12%] Building C object ext/easel/CMakeFiles/easel.dir/esl_mpi.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_mpi.c.o -MF CMakeFiles/easel.dir/esl_mpi.c.o.d -o CMakeFiles/easel.dir/esl_mpi.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_mpi.c [ 13%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msa.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msa.c.o -MF CMakeFiles/easel.dir/esl_msa.c.o.d -o CMakeFiles/easel.dir/esl_msa.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msa.c [ 13%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile.c.o -MF CMakeFiles/easel.dir/esl_msafile.c.o.d -o CMakeFiles/easel.dir/esl_msafile.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msafile.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:6, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo::PointerUnionTraits >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:61:56: required from 'IntType llvm::PointerIntPair::getInt() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData::PointerUnionTraits >*>; Info = llvm::PointerIntPairInfo::PointerUnionTraits >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:81:28: required from 'adt::impl::SmallPODVectorData::size_type adt::impl::SmallPODVectorData::size() const [with T = omnigraph::impl::EdgeId; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:430:47: required from 'adt::SmallPODVector::size_type adt::SmallPODVector::size() const [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:174:76: required from 'size_t omnigraph::PairedVertex::OutgoingEdgeCount() const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:707:93: required from 'size_t omnigraph::GraphCore::OutgoingEdgeCount(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:81:36: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ [ 13%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msacluster.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msacluster.c.o -MF CMakeFiles/easel.dir/esl_msacluster.c.o.d -o CMakeFiles/easel.dir/esl_msacluster.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msacluster.c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:64:32: required from 'void llvm::PointerIntPair::setPointer(PointerTy) & [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:60:25: required from 'void adt::impl::SmallPODVectorData::reset() [with T = omnigraph::de::PointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:259:20: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage() [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:387:5: required from 'void omnigraph::de::PairedBuffer::BinRead(std::istream&) [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits; Container = omnigraph::de::safe_btree_map; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:215:22: required from 'static void io::binary::impl::Serializer, void>::type>::Read(std::istream&, T&) [with T = omnigraph::de::PairedIndex; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:81:24: required from 'std::enable_if_t > io::binary::impl::BinRead(std::istream&, T&) [with T = omnigraph::de::PairedIndex; std::enable_if_t > = void; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:589:16: required from 'io::binary::impl::BinIStream& io::binary::impl::BinIStream::operator>>(T&) [with T = omnigraph::de::PairedIndex]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/io_base.hpp:197:13: required from 'void io::binary::IOSingleDefault::LoadImpl(io::binary::impl::BinIStream&, T&) [with T = omnigraph::de::PairedIndex]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/io_base.hpp:196:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:64:32: required from 'void llvm::PointerIntPair::setPointer(PointerTy) & [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:60:25: required from 'void adt::impl::SmallPODVectorData::reset() [with T = omnigraph::de::RawPointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:259:20: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage() [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:387:5: required from 'void omnigraph::de::PairedBuffer::BinRead(std::istream&) [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; Container = omnigraph::de::btree_map; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:215:22: required from 'static void io::binary::impl::Serializer, void>::type>::Read(std::istream&, T&) [with T = omnigraph::de::PairedIndex; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:81:24: required from 'std::enable_if_t > io::binary::impl::BinRead(std::istream&, T&) [with T = omnigraph::de::PairedIndex; std::enable_if_t > = void; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:589:16: required from 'io::binary::impl::BinIStream& io::binary::impl::BinIStream::operator>>(T&) [with T = omnigraph::de::PairedIndex]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/io_base.hpp:197:13: required from 'void io::binary::IOSingleDefault::LoadImpl(io::binary::impl::BinIStream&, T&) [with T = omnigraph::de::PairedIndex]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/io_base.hpp:196:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:59:57: required from 'PointerTy llvm::PointerIntPair::getPointer() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:99:46: required from 'const T* adt::impl::SmallPODVectorData::cdata() const [with T = omnigraph::de::RawPointT; const_pointer = const omnigraph::de::RawPointT*]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:435:53: required from 'const T* adt::SmallPODVector::cdata() const [with T = omnigraph::de::RawPointT; Container = adt::impl::HybridAllocatedStorage, 3>; const_pointer = const omnigraph::de::RawPointT*]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:443:58: required from 'const T* adt::SmallPODVector::end() const [with T = omnigraph::de::RawPointT; Container = adt::impl::HybridAllocatedStorage, 3>; const_iterator = const omnigraph::de::RawPointT*]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:43:63: required from 'adt::flat_set::const_iterator adt::flat_set::end() const [with T = omnigraph::de::RawPointT; Comp = std::less >; Container = adt::SmallPODVector; const_iterator = const omnigraph::de::RawPointT*]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:67:50: required from 'omnigraph::de::Histogram::const_iterator omnigraph::de::Histogram::end() const [with Point = omnigraph::de::RawPointT; const_iterator = const omnigraph::de::RawPointT*]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:130:46: required from 'omnigraph::de::PairedIndex::HistProxy::Iterator omnigraph::de::PairedIndex::HistProxy::begin() const [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; Container = omnigraph::de::btree_map]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.cpp:32:23: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 13%] Built target mimalloc-obj [ 13%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile2.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile2.c.o -MF CMakeFiles/easel.dir/esl_msafile2.c.o.d -o CMakeFiles/easel.dir/esl_msafile2.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msafile2.c make[4]: *** [common/paired_info/CMakeFiles/paired_info.dir/build.make:93: common/paired_info/CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o] Error 1 [ 13%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o -MF CMakeFiles/BamTools.dir/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/SamProgramChain.cpp [ 13%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/APInt.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/APInt.cpp.o -MF CMakeFiles/llvm-support.dir/APInt.cpp.o.d -o CMakeFiles/llvm-support.dir/APInt.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/APInt.cpp [ 13%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_a2m.c.o [ 13%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Atomic.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_a2m.c.o -MF CMakeFiles/easel.dir/esl_msafile_a2m.c.o.d -o CMakeFiles/easel.dir/esl_msafile_a2m.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_a2m.c cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Atomic.cpp.o -MF CMakeFiles/llvm-support.dir/Atomic.cpp.o.d -o CMakeFiles/llvm-support.dir/Atomic.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Atomic.cpp /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index.hpp: In instantiation of 'void kmers::KMerIndex::count_size() [with traits = kmers::kmer_index_traits >]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index.hpp:119:5: required from 'void kmers::KMerIndex::deserialize(Reader&) [with Reader = std::basic_istream; traits = kmers::kmer_index_traits >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map.hpp:74:32: required from 'void utils::IndexWrapper::BinRead(Reader&) [with Reader = std::basic_istream; K = RuntimeSeq<128>; traits = kmers::kmer_index_traits >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map.hpp:147:25: required from 'void utils::PerfectHashMap::BinRead(Reader&) [with Reader = std::basic_istream; K = RuntimeSeq<128>; V = debruijn_graph::EdgeInfo; traits = kmers::kmer_index_traits >; StoringType = utils::InvertableStoring; Container = std::vector, std::allocator > >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:104:23: required from 'void debruijn_graph::EdgeIndex::BinRead(Index*, Reader&) [with Reader = std::basic_istream; Index = debruijn_graph::KmerFreeEdgeIndex; Graph = debruijn_graph::DeBruijnGraph]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:193:9: required from 'void debruijn_graph::EdgeIndex::BinRead(Reader&) [with Reader = std::basic_istream; Graph = debruijn_graph::DeBruijnGraph]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:215:22: required from 'static void io::binary::impl::Serializer, void>::type>::Read(std::istream&, T&) [with T = debruijn_graph::EdgeIndex; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:81:24: required from 'std::enable_if_t > io::binary::impl::BinRead(std::istream&, T&) [with T = debruijn_graph::EdgeIndex; std::enable_if_t > = void; std::istream = std::basic_istream]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:589:16: required from 'io::binary::impl::BinIStream& io::binary::impl::BinIStream::operator>>(T&) [with T = debruijn_graph::EdgeIndex]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/edge_index.hpp:33:13: required from 'void io::binary::EdgeIndexIO::LoadImpl(io::binary::impl::BinIStream&, Type&) [with Graph = debruijn_graph::DeBruijnGraph; Type = debruijn_graph::EdgeIndex]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/io/binary/edge_index.hpp:28:10: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index.hpp:78:15: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 78 | size_ += index_[i].size(); | ~~~~~~^~~~~~~~~~~~~~~~~~~ [ 13%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o -MF CMakeFiles/BamTools.dir/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/SamReadGroup.cpp [ 15%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o -MF CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o.d -o CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/CrashRecoveryContext.cpp [ 16%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_afa.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_afa.c.o -MF CMakeFiles/easel.dir/esl_msafile_afa.c.o.d -o CMakeFiles/easel.dir/esl_msafile_afa.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_afa.c /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'size_t omnigraph::GraphCore::int_id(EdgeId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.cpp:93:9: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:698:67: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 698 | size_t int_id(EdgeId edge) const noexcept { return edge.int_id(); } | ~~~~~~~~~~~^~ [ 16%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_clustal.c.o /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedVertex; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:15: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] 257 | resize(id_distributor_.size() + bias_); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In instantiation of 'omnigraph::GraphCore::IdStorage::IdStorage(uint64_t) [with T = omnigraph::PairedEdge; DataMaster = debruijn_graph::DeBruijnDataMaster; uint64_t = long long unsigned int]': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:671:35: required from 'omnigraph::GraphCore::GraphCore(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:113:84: required from 'omnigraph::ObservableGraph::ObservableGraph(const DataMaster&) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:34:43: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:257:43: warning: conversion from 'uint64_t' {aka 'long long unsigned int'} to 'size_t' {aka 'unsigned int'} may change value [-Wconversion] cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_clustal.c.o -MF CMakeFiles/easel.dir/esl_msafile_clustal.c.o.d -o CMakeFiles/easel.dir/esl_msafile_clustal.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_clustal.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:6, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:64:32: required from 'void llvm::PointerIntPair::setPointer(PointerTy) & [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:60:25: required from 'void adt::impl::SmallPODVectorData::reset() [with T = omnigraph::de::RawPointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:259:20: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage() [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:387:5: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ [ 16%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_phylip.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_phylip.c.o -MF CMakeFiles/easel.dir/esl_msafile_phylip.c.o.d -o CMakeFiles/easel.dir/esl_msafile_phylip.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_phylip.c [ 16%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/SamReadGroupDictionary.cpp /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:59:57: required from 'PointerTy llvm::PointerIntPair::getPointer() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:290:44: required from 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3; typename adt::impl::SmallPODVectorData::size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:421:19: required from 'adt::SmallPODVector::~SmallPODVector() [with T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:13:8: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o -MF CMakeFiles/BamTools.dir/SamSequence.cpp.o.d -o CMakeFiles/BamTools.dir/SamSequence.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/SamSequence.cpp make[4]: *** [common/io/binary/CMakeFiles/binary_io.dir/build.make:79: common/io/binary/CMakeFiles/binary_io.dir/graph_pack.cpp.o] Error 1 make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make[3]: *** [CMakeFiles/Makefile2:2039: common/io/binary/CMakeFiles/binary_io.dir/all] Error 2 [ 17%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/SamSequenceDictionary.cpp /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo::PointerUnionTraits >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:61:56: required from 'IntType llvm::PointerIntPair::getInt() const [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData::PointerUnionTraits >*>; Info = llvm::PointerIntPairInfo::PointerUnionTraits >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:81:28: required from 'adt::impl::SmallPODVectorData::size_type adt::impl::SmallPODVectorData::size() const [with T = omnigraph::impl::EdgeId; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:430:47: required from 'adt::SmallPODVector::size_type adt::SmallPODVector::size() const [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage; size_type = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:174:76: required from 'size_t omnigraph::PairedVertex::OutgoingEdgeCount() const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:707:93: required from 'size_t omnigraph::GraphCore::OutgoingEdgeCount(VertexId) const [with DataMaster = debruijn_graph::DeBruijnDataMaster; size_t = unsigned int; VertexId = omnigraph::impl::VertexId]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:81:36: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h: In instantiation of 'struct llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:64:32: required from 'void llvm::PointerIntPair::setPointer(PointerTy) & [with PointerTy = void*; unsigned int IntBits = 3; IntType = unsigned int; PtrTraits = adt::impl::SmallPODVectorData >::PointerUnionTraits*, std::vector, std::allocator > >*>; Info = llvm::PointerIntPairInfo >::PointerUnionTraits*, std::vector, std::allocator > >*> >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:60:25: required from 'void adt::impl::SmallPODVectorData::reset() [with T = omnigraph::de::RawPointT]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:259:20: required from 'adt::impl::HybridAllocatedStorage::HybridAllocatedStorage() [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:387:5: required from 'static const omnigraph::de::PairedIndex::InnerHistogram& omnigraph::de::PairedIndex::HistProxy::empty_hist() [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; Container = omnigraph::de::btree_map; omnigraph::de::PairedIndex::InnerHistogram = omnigraph::de::Histogram >]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:445:37: required from 'const omnigraph::de::PairedIndex::InnerHistogram& omnigraph::de::PairedIndex::GetImpl(typename base::EdgeId, typename base::EdgeId) const [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; Container = omnigraph::de::btree_map; InnerHistogram = omnigraph::de::Histogram >; typename base::EdgeId = omnigraph::impl::EdgeId; base = omnigraph::de::PairedBuffer]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:477:33: required from 'omnigraph::de::PairedIndex::HistProxy omnigraph::de::PairedIndex::Get(typename base::EdgeId, typename base::EdgeId) const [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::RawPointTraits; Container = omnigraph::de::btree_map; typename base::EdgeId = omnigraph::impl::EdgeId; base = omnigraph::de::PairedBuffer]' /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.cpp:97:27: required from here /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: error: static assertion failed: PointerIntPair with integer size too large for pointer 148 | static_assert(IntBits <= PtrTraits::NumLowBitsAvailable, | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:148:25: note: the comparison reduces to '(3 <= 2)' /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:163:42: error: right operand of shift expression '(7 << 4294967295)' is greater than or equal to the precision 32 of the left operand [-fpermissive] 163 | ShiftedIntMask = (uintptr_t)(IntMask << IntShift) | ~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include/llvm/ADT/PointerIntPair.h:150:8: error: enumerator value for 'ShiftedIntMask' is not an integer constant 150 | enum MaskAndShiftConstants : uintptr_t { | ^~~~~~~~~~~~~~~~~~~~~ [ 18%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Sequence.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Sequence.cpp.o -MF CMakeFiles/ConsensusCore.dir/Sequence.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Sequence.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Sequence.cpp [ 18%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamHeader_p.cpp [ 18%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_psiblast.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG 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object ext/easel/CMakeFiles/easel.dir/esl_msashuffle.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT 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/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_normal.c.o -MF CMakeFiles/easel.dir/esl_normal.c.o.d -o CMakeFiles/easel.dir/esl_normal.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_normal.c [ 19%] Building C object ext/easel/CMakeFiles/easel.dir/esl_paml.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src 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[ 20%] Building C object ext/easel/CMakeFiles/easel.dir/esl_randomseq.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_randomseq.c.o -MF CMakeFiles/easel.dir/esl_randomseq.c.o.d -o CMakeFiles/easel.dir/esl_randomseq.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_randomseq.c [ 20%] Building C object ext/easel/CMakeFiles/easel.dir/esl_ratematrix.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_ratematrix.c.o -MF CMakeFiles/easel.dir/esl_ratematrix.c.o.d -o CMakeFiles/easel.dir/esl_ratematrix.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_ratematrix.c [ 20%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamRandomAccessController_p.cpp [ 20%] Building C object ext/easel/CMakeFiles/easel.dir/esl_recorder.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_recorder.c.o -MF CMakeFiles/easel.dir/esl_recorder.c.o.d -o CMakeFiles/easel.dir/esl_recorder.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_recorder.c [ 20%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Version.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Version.cpp.o -MF CMakeFiles/ConsensusCore.dir/Version.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Version.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Version.cpp [ 20%] Building C object ext/easel/CMakeFiles/easel.dir/esl_regexp.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_regexp.c.o -MF CMakeFiles/easel.dir/esl_regexp.c.o.d -o CMakeFiles/easel.dir/esl_regexp.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_regexp.c [ 20%] Building C object ext/easel/CMakeFiles/easel.dir/esl_rootfinder.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_rootfinder.c.o -MF CMakeFiles/easel.dir/esl_rootfinder.c.o.d -o CMakeFiles/easel.dir/esl_rootfinder.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_rootfinder.c [ 20%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o [ 22%] Building C object ext/easel/CMakeFiles/easel.dir/esl_scorematrix.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamReader_p.cpp cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_scorematrix.c.o -MF CMakeFiles/easel.dir/esl_scorematrix.c.o.d -o CMakeFiles/easel.dir/esl_scorematrix.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_scorematrix.c [ 22%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sq.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sq.c.o -MF CMakeFiles/easel.dir/esl_sq.c.o.d -o CMakeFiles/easel.dir/esl_sq.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sq.c [ 22%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Errno.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Errno.cpp.o -MF CMakeFiles/llvm-support.dir/Errno.cpp.o.d -o CMakeFiles/llvm-support.dir/Errno.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Errno.cpp [ 23%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamWriter_p.cpp [ 23%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sqio.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sqio.c.o -MF CMakeFiles/easel.dir/esl_sqio.c.o.d -o CMakeFiles/easel.dir/esl_sqio.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sqio.c [ 23%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sqio_ascii.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sqio_ascii.c.o -MF CMakeFiles/easel.dir/esl_sqio_ascii.c.o.d -o CMakeFiles/easel.dir/esl_sqio_ascii.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sqio_ascii.c [ 23%] Linking CXX static library libcoverage_model.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/modules/coverage_model && /usr/bin/cmake -P CMakeFiles/coverage_model.dir/cmake_clean_target.cmake [ 23%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Error.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Error.cpp.o -MF CMakeFiles/llvm-support.dir/Error.cpp.o.d -o CMakeFiles/llvm-support.dir/Error.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Error.cpp cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/common/modules/coverage_model && /usr/bin/cmake -E cmake_link_script CMakeFiles/coverage_model.dir/link.txt --verbose=1 /usr/bin/ar qc libcoverage_model.a CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o /usr/bin/ranlib libcoverage_model.a make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 23%] Built target coverage_model [ 23%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o -MF CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o.d -o CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/ErrorHandling.cpp [ 23%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sqio_ncbi.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sqio_ncbi.c.o -MF CMakeFiles/easel.dir/esl_sqio_ncbi.c.o.d -o CMakeFiles/easel.dir/esl_sqio_ncbi.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sqio_ncbi.c [ 24%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sse.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sse.c.o -MF CMakeFiles/easel.dir/esl_sse.c.o.d -o CMakeFiles/easel.dir/esl_sse.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.c [ 24%] Building C object ext/easel/CMakeFiles/easel.dir/esl_ssi.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_ssi.c.o -MF CMakeFiles/easel.dir/esl_ssi.c.o.d -o CMakeFiles/easel.dir/esl_ssi.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_ssi.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.c:36: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.h: In function 'esl_sse_select_ps': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.h:67:1: warning: SSE vector return without SSE enabled changes the ABI [-Wpsabi] 67 | { | ^ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.c:32: /usr/lib/gcc/i686-linux-gnu/12/include/xmmintrin.h:252:1: error: inlining failed in call to 'always_inline' '_mm_or_ps': target specific option mismatch 252 | _mm_or_ps (__m128 __A, __m128 __B) | ^~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.h:70:10: note: called from here 70 | return _mm_or_ps(a,b); | ^~~~~~~~~~~~~~ /usr/lib/gcc/i686-linux-gnu/12/include/xmmintrin.h:246:1: error: inlining failed in call to 'always_inline' '_mm_andnot_ps': target specific option mismatch 246 | _mm_andnot_ps (__m128 __A, __m128 __B) | ^~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.h:69:7: note: called from here 69 | a = _mm_andnot_ps(mask, a); | ^~~~~~~~~~~~~~~~~~~~~~ /usr/lib/gcc/i686-linux-gnu/12/include/xmmintrin.h:240:1: error: inlining failed in call to 'always_inline' '_mm_and_ps': target specific option mismatch 240 | _mm_and_ps (__m128 __A, __m128 __B) | ^~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/easel/esl_sse.h:68:7: note: called from here 68 | b = _mm_and_ps(b, mask); | ^~~~~~~~~~~~~~~~~~~ make[4]: *** [ext/easel/CMakeFiles/easel.dir/build.make:807: ext/easel/CMakeFiles/easel.dir/esl_sse.c.o] Error 1 make[4]: *** Waiting for unfinished jobs.... [ 25%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/FoldingSet.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/FoldingSet.cpp.o -MF CMakeFiles/llvm-support.dir/FoldingSet.cpp.o.d -o CMakeFiles/llvm-support.dir/FoldingSet.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/FoldingSet.cpp [ 25%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o -MF CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o.d -o CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/FormatVariadic.cpp [ 25%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o -MF CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Matrix/DenseMatrix.cpp [ 25%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/index/BamIndexFactory_p.cpp [ 25%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/index/BamStandardIndex_p.cpp [ 25%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ 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ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ParallelBgzfStream_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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-D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/LineIterator.cpp.o -MF CMakeFiles/llvm-support.dir/LineIterator.cpp.o.d -o CMakeFiles/llvm-support.dir/LineIterator.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/LineIterator.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore/Matrix/DenseMatrix.hpp:114, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Matrix/DenseMatrix.cpp:39: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore/Matrix/DenseMatrix-inl.hpp: In member function '__m128 ConsensusCore::DenseMatrix::Get4(int, int) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore/Matrix/DenseMatrix-inl.hpp:157:37: warning: SSE vector return without SSE enabled changes the ABI [-Wpsabi] 157 | DenseMatrix::Get4(int i, int j) const | ^~~~~ [ 27%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Locale.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Locale.cpp.o -MF CMakeFiles/llvm-support.dir/Locale.cpp.o.d -o CMakeFiles/llvm-support.dir/Locale.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Locale.cpp [ 29%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/RollingBuffer_p.cpp [ 29%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/SerialBgzfStream_p.cpp [ 29%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o -MF CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Matrix/SparseMatrix.cpp [ 29%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c:32: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c: In function 'bgzf_check_EOF': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:73:34: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 73 | #define _bgzf_read(fp, buf, len) fread(buf, 1, len, (_bgzf_file_t)fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c:578:9: note: in expansion of macro '_bgzf_read' 578 | _bgzf_read(fp->fp, buf, 28); | ^~~~~~~~~~ [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/MD5.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/MD5.cpp.o -MF CMakeFiles/llvm-support.dir/MD5.cpp.o.d -o CMakeFiles/llvm-support.dir/MD5.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/MD5.cpp [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o -MF CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o.d -o CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/ManagedStatic.cpp [ 30%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/MemAlloc.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/MemAlloc.cpp.o -MF CMakeFiles/llvm-support.dir/MemAlloc.cpp.o.d -o CMakeFiles/llvm-support.dir/MemAlloc.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/MemAlloc.cpp [ 30%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c:46: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c: In function 'kftp_send_cmd': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c:236:9: note: in expansion of macro 'netwrite' 236 | netwrite(ftp->ctrl_fd, cmd, strlen(cmd)); | ^~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c: In function 'khttp_connect_file': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c:415:9: note: in expansion of macro 'netwrite' 415 | netwrite(fp->fd, buf, l); | ^~~~~~~~ [ 30%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/block.c [ 31%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/consumer.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/block.c:5: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/block.c:4: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ [ 31%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/consumer.c:12: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/consumer.c:11: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.c [ 31%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o -MF CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o.d -o CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/MemoryBuffer.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.c:14: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.c:13: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ [ 31%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/queue.c [ 31%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/reader.c [ 32%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o -MF CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Poa/PoaConfig.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/queue.c:6: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore/Matrix/SparseVector.hpp:97, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore/Matrix/SparseMatrix.hpp:44, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Matrix/SparseMatrix.cpp:38: /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore/Matrix/SparseVector-inl.hpp: In member function '__m128 ConsensusCore::SparseVector::Get4(int) const': /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore/Matrix/SparseVector-inl.hpp:173:31: warning: SSE vector return without SSE enabled changes the ABI [-Wpsabi] 173 | SparseVector::Get4(int i) const | ^~~~~ [ 32%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o -MF CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o.d -o CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/NativeFormatting.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/reader.c:8: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/reader.c:7: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ [ 32%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o -MF CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Poa/PoaConsensus.cpp [ 32%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.c [ 33%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/writer.c In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.h:11, from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/writer.c:10: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ [ 33%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/writer.c:7: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/sam/SamFormatParser_p.cpp [ 33%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/sam/SamFormatPrinter_p.cpp [ 33%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/sam/SamHeaderValidator_p.cpp [ 33%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/utils/BamException_p.cpp [ 33%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Path.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Path.cpp.o -MF CMakeFiles/llvm-support.dir/Path.cpp.o.d -o CMakeFiles/llvm-support.dir/Path.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Path.cpp [ 33%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o -MF CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/ConsensusCore/Poa/PoaGraph.cpp [ 33%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Process.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Process.cpp.o -MF CMakeFiles/llvm-support.dir/Process.cpp.o.d -o CMakeFiles/llvm-support.dir/Process.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Process.cpp [ 34%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Program.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Program.cpp.o -MF CMakeFiles/llvm-support.dir/Program.cpp.o.d -o CMakeFiles/llvm-support.dir/Program.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Program.cpp [ 34%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Regex.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Regex.cpp.o -MF CMakeFiles/llvm-support.dir/Regex.cpp.o.d -o CMakeFiles/llvm-support.dir/Regex.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Regex.cpp [ 34%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Signals.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Signals.cpp.o -MF CMakeFiles/llvm-support.dir/Signals.cpp.o.d -o CMakeFiles/llvm-support.dir/Signals.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Signals.cpp [ 34%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/SmallVector.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/SmallVector.cpp.o -MF CMakeFiles/llvm-support.dir/SmallVector.cpp.o.d -o CMakeFiles/llvm-support.dir/SmallVector.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/SmallVector.cpp [ 34%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/SourceMgr.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/SourceMgr.cpp.o -MF CMakeFiles/llvm-support.dir/SourceMgr.cpp.o.d -o CMakeFiles/llvm-support.dir/SourceMgr.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/SourceMgr.cpp [ 36%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringExtras.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/StringExtras.cpp.o -MF CMakeFiles/llvm-support.dir/StringExtras.cpp.o.d -o CMakeFiles/llvm-support.dir/StringExtras.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/StringExtras.cpp [ 36%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringMap.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG 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/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/StringMap.cpp In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Process.cpp:100: /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Process.inc: In static member function 'static size_t llvm::sys::Process::GetMallocUsage()': /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Process.inc:94:18: warning: 'mallinfo mallinfo()' is deprecated [-Wdeprecated-declarations] 94 | mi = ::mallinfo(); | ~~~~~~~~~~^~ In file included from /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Process.inc:35: /usr/include/malloc.h:114:24: note: declared here 114 | extern struct mallinfo mallinfo (void) __THROW __MALLOC_DEPRECATED; | ^~~~~~~~ [ 36%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringRef.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 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Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringSaver.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/StringSaver.cpp.o -MF CMakeFiles/llvm-support.dir/StringSaver.cpp.o.d -o CMakeFiles/llvm-support.dir/StringSaver.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/StringSaver.cpp [ 36%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o -MF CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o.d -o CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/ThreadLocal.cpp [ 37%] Linking CXX static library libBamTools.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cmake -P CMakeFiles/BamTools.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/bamtools/api && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 /usr/bin/ar qc libBamTools.a CMakeFiles/BamTools.dir/BamAlignment.cpp.o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/BamReader.cpp.o 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CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/internal/io/ParallelBgzfStream_p.cpp.o CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o [ 38%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Threading.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Threading.cpp.o -MF CMakeFiles/llvm-support.dir/Threading.cpp.o.d -o CMakeFiles/llvm-support.dir/Threading.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Threading.cpp [ 38%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o -MF CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o.d -o CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/TimeProfiler.cpp /usr/bin/ranlib libBamTools.a make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 38%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Twine.cpp.o [ 38%] Built target BamTools cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Twine.cpp.o -MF CMakeFiles/llvm-support.dir/Twine.cpp.o.d -o CMakeFiles/llvm-support.dir/Twine.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Twine.cpp [ 38%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Unicode.cpp.o [ 38%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/WithColor.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Unicode.cpp.o -MF CMakeFiles/llvm-support.dir/Unicode.cpp.o.d -o CMakeFiles/llvm-support.dir/Unicode.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/Unicode.cpp cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/WithColor.cpp.o -MF CMakeFiles/llvm-support.dir/WithColor.cpp.o.d -o CMakeFiles/llvm-support.dir/WithColor.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/WithColor.cpp [ 39%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/YAMLParser.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/YAMLParser.cpp.o -MF CMakeFiles/llvm-support.dir/YAMLParser.cpp.o.d -o CMakeFiles/llvm-support.dir/YAMLParser.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/YAMLParser.cpp [ 39%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o -MF CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o.d -o CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/YAMLTraits.cpp [ 39%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o -MF CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o.d -o CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/raw_os_ostream.cpp [ 39%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/raw_ostream.cpp.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -std=gnu++14 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/raw_ostream.cpp.o -MF CMakeFiles/llvm-support.dir/raw_ostream.cpp.o.d -o CMakeFiles/llvm-support.dir/raw_ostream.cpp.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/raw_ostream.cpp [ 39%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regcomp.c.o [ 39%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regerror.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regerror.c.o -MF CMakeFiles/llvm-support.dir/regerror.c.o.d -o CMakeFiles/llvm-support.dir/regerror.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/regerror.c cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regcomp.c.o -MF CMakeFiles/llvm-support.dir/regcomp.c.o.d -o CMakeFiles/llvm-support.dir/regcomp.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/regcomp.c [ 40%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regexec.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regexec.c.o -MF CMakeFiles/llvm-support.dir/regexec.c.o.d -o CMakeFiles/llvm-support.dir/regexec.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/regexec.c [ 40%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regfree.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regfree.c.o -MF CMakeFiles/llvm-support.dir/regfree.c.o.d -o CMakeFiles/llvm-support.dir/regfree.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/regfree.c [ 40%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regstrlcpy.c.o cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/include -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-3.15.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regstrlcpy.c.o -MF CMakeFiles/llvm-support.dir/regstrlcpy.c.o.d -o CMakeFiles/llvm-support.dir/regstrlcpy.c.o -c /build/reproducible-path/spades-3.15.5+dfsg/assembler/ext/src/llvm/regstrlcpy.c [ 40%] Linking CXX static library ../../../lib/libgtest.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/googletest/googletest && /usr/bin/cmake -P CMakeFiles/gtest.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/googletest/googletest && /usr/bin/cmake -E cmake_link_script CMakeFiles/gtest.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libgtest.a "CMakeFiles/gtest.dir/src/gtest-all.cc.o" [ 40%] Linking CXX static library libllvm-support.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/cmake -P CMakeFiles/llvm-support.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/llvm && /usr/bin/cmake -E cmake_link_script CMakeFiles/llvm-support.dir/link.txt --verbose=1 /usr/bin/ranlib ../../../lib/libgtest.a /usr/bin/ar qc libllvm-support.a "CMakeFiles/llvm-support.dir/APFloat.cpp.o" "CMakeFiles/llvm-support.dir/APInt.cpp.o" "CMakeFiles/llvm-support.dir/Atomic.cpp.o" "CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o" "CMakeFiles/llvm-support.dir/Debug.cpp.o" "CMakeFiles/llvm-support.dir/Errno.cpp.o" "CMakeFiles/llvm-support.dir/Error.cpp.o" "CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o" "CMakeFiles/llvm-support.dir/FoldingSet.cpp.o" "CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o" "CMakeFiles/llvm-support.dir/Hashing.cpp.o" "CMakeFiles/llvm-support.dir/Host.cpp.o" "CMakeFiles/llvm-support.dir/JSON.cpp.o" "CMakeFiles/llvm-support.dir/LEB128.cpp.o" "CMakeFiles/llvm-support.dir/LineIterator.cpp.o" "CMakeFiles/llvm-support.dir/Locale.cpp.o" "CMakeFiles/llvm-support.dir/MD5.cpp.o" "CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o" "CMakeFiles/llvm-support.dir/MemAlloc.cpp.o" "CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o" "CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o" "CMakeFiles/llvm-support.dir/Path.cpp.o" "CMakeFiles/llvm-support.dir/Process.cpp.o" "CMakeFiles/llvm-support.dir/Program.cpp.o" "CMakeFiles/llvm-support.dir/Regex.cpp.o" "CMakeFiles/llvm-support.dir/Signals.cpp.o" "CMakeFiles/llvm-support.dir/SmallVector.cpp.o" "CMakeFiles/llvm-support.dir/SourceMgr.cpp.o" "CMakeFiles/llvm-support.dir/StringExtras.cpp.o" "CMakeFiles/llvm-support.dir/StringMap.cpp.o" "CMakeFiles/llvm-support.dir/StringRef.cpp.o" "CMakeFiles/llvm-support.dir/StringSaver.cpp.o" "CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o" "CMakeFiles/llvm-support.dir/Threading.cpp.o" "CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o" "CMakeFiles/llvm-support.dir/Twine.cpp.o" "CMakeFiles/llvm-support.dir/Unicode.cpp.o" "CMakeFiles/llvm-support.dir/WithColor.cpp.o" "CMakeFiles/llvm-support.dir/YAMLParser.cpp.o" "CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o" "CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o" "CMakeFiles/llvm-support.dir/raw_ostream.cpp.o" "CMakeFiles/llvm-support.dir/regcomp.c.o" "CMakeFiles/llvm-support.dir/regerror.c.o" "CMakeFiles/llvm-support.dir/regexec.c.o" "CMakeFiles/llvm-support.dir/regfree.c.o" "CMakeFiles/llvm-support.dir/regstrlcpy.c.o" make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 40%] Built target gtest /usr/bin/ranlib libllvm-support.a make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 40%] Built target llvm-support [ 40%] Linking CXX static library libConsensusCore.a cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/cmake -P CMakeFiles/ConsensusCore.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu/ext/ConsensusCore && /usr/bin/cmake -E cmake_link_script CMakeFiles/ConsensusCore.dir/link.txt --verbose=1 /usr/bin/ar qc libConsensusCore.a CMakeFiles/ConsensusCore.dir/AffineAlignment.cpp.o CMakeFiles/ConsensusCore.dir/Coverage.cpp.o CMakeFiles/ConsensusCore.dir/Mutation.cpp.o CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o CMakeFiles/ConsensusCore.dir/Sequence.cpp.o CMakeFiles/ConsensusCore.dir/Utils.cpp.o CMakeFiles/ConsensusCore.dir/Version.cpp.o CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o /usr/bin/ranlib libConsensusCore.a make[4]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' [ 40%] Built target ConsensusCore make[3]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' make[2]: *** [Makefile:169: all] Error 2 make[2]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg/obj-i686-linux-gnu' dh_auto_build: error: cd obj-i686-linux-gnu && make -j16 "INSTALL=install --strip-program=true" all debruijn_test include_test VERBOSE=1 returned exit code 2 make[1]: *** [debian/rules:29: override_dh_auto_build] Error 25 make[1]: Leaving directory '/build/reproducible-path/spades-3.15.5+dfsg' make: *** [debian/rules:14: binary] Error 2 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/128141 and its subdirectories Tue Jan 16 19:39:56 UTC 2024 W: No second build log, what happened?