Thu Jan 11 01:17:05 UTC 2024 I: starting to build shasta/bookworm/amd64 on jenkins on '2024-01-11 01:16' Thu Jan 11 01:17:05 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_14/12210/console.log Thu Jan 11 01:17:05 UTC 2024 I: Downloading source for bookworm/shasta=0.11.1-1 --2024-01-11 01:17:05-- http://cdn-fastly.deb.debian.org/debian/pool/main/s/shasta/shasta_0.11.1-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2373 (2.3K) [text/prs.lines.tag] Saving to: ‘shasta_0.11.1-1.dsc’ 0K .. 100% 406M=0s 2024-01-11 01:17:05 (406 MB/s) - ‘shasta_0.11.1-1.dsc’ saved [2373/2373] Thu Jan 11 01:17:05 UTC 2024 I: shasta_0.11.1-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: shasta Binary: shasta, python3-shasta, python3-shasta-doc Architecture: any-amd64 arm64 all Version: 0.11.1-1 Maintainer: Debian Med Packaging Team Uploaders: Shayan Doust Homepage: https://github.com/chanzuckerberg/shasta Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/shasta Vcs-Git: https://salsa.debian.org/med-team/shasta.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, dh-exec, cmake, patchelf, chrpath, libboost-all-dev, libpng-dev, ncbi-blast+, python3-sphinx, python3-dev, libseqan2-dev, libspoa-dev, python3-pybind11, libcpu-features-dev [any-amd64], libcereal-dev, libblas-dev, liblapack-dev, gfortran Package-List: python3-shasta deb python optional arch=any-amd64,arm64 python3-shasta-doc deb doc optional arch=all shasta deb science optional arch=any-amd64,arm64 Checksums-Sha1: 372f39c1423a43164db29c55859397393a436744 3999058 shasta_0.11.1.orig.tar.gz 38cd34e9c6c114a388bfe417598113dc97dfa173 9552 shasta_0.11.1-1.debian.tar.xz Checksums-Sha256: 7fdf7cfd939f33a619773f5c6ca56e168b3e1cc77b9b7811a98ec06f6dd8ba9a 3999058 shasta_0.11.1.orig.tar.gz 383da8142b734de70679076cb928e0a00a5c2b2b23ebcafe5d3455d2ff529367 9552 shasta_0.11.1-1.debian.tar.xz Files: c1ec064ed6fe3d2815d70bc3baa2e61f 3999058 shasta_0.11.1.orig.tar.gz 79c62e55027d015632cb1ad27ed2c3f6 9552 shasta_0.11.1-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmOXDb0RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFi+A/9EzLAgPLjLjjnLtiJQqfWzXijDFyiYOuf gh/lpex4CJRNMjsb12R3v1+FsZ/rK4O5lzn8CaUWb/EgfAxe9qKDkwUXrrQ5HFSU x7u+BVtCbybEYz514crCULIgbKFTlpBEvc10HCrK9DBge1jgGn07+tbcxyfaTlM3 FSXVfsLFQdp/1ep3Ds4iB0zx/uZFNtBhARq4GCpDSbtxP99s8WphSNV/s2pF4GCc ZNTDFapdG7f1oK8PrGoSCLSxu9bZ6mmFYOiqYiFFh1ZHEhZXeV97tbYMtsW6TeXT NvQcuFRML6YMH2gJo16NUTn2PTCADNMkAjZAYtO7/2RYUto7tkpxMWeuPYeQ1+V9 R/LBa1B53//qysZwy8ssDSNdgU4v6euq+934vyL7pIVhjme+z8Ki3m81vbpGl8Ho omOQgSey8XhJqymL35enEVfkf4tuw0jJgLxPgmgMddZ8z+L7SIrV8vkCuuNmIH7n ODWDFNaqX6o/YA4meuT8jqkWjtepAqKPEtXacG5R6FhUoGoV+rceI9sFLmmnGcgv x2e5Fdul7K+wKncx3I8njVVXvkBFX6ybnOFGlO6jXJq7pBUu8JDHCqCRfZ3HJZ4P LPIpe/MFo/IV//p2uRPf3uz0DKsBI6dXfmgEb4jsoAQzYMOpz9XkrTo2RH7x5z++ 2U11cgYO/yc= =jLhf -----END PGP SIGNATURE----- Thu Jan 11 01:17:05 UTC 2024 I: Checking whether the package is not for us Thu Jan 11 01:17:05 UTC 2024 I: Starting 1st build on remote node ionos5-amd64.debian.net. Thu Jan 11 01:17:05 UTC 2024 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Thu Jan 11 01:23:39 UTC 2024 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Feb 11 19:40:24 -12 2025 I: pbuilder-time-stamp: 1739346024 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: Copying source file I: copying [shasta_0.11.1-1.dsc] I: copying [./shasta_0.11.1.orig.tar.gz] I: copying [./shasta_0.11.1-1.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Dec 12 11:17:17 2022 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./shasta_0.11.1-1.dsc: no acceptable signature found dpkg-source: info: extracting shasta in shasta-0.11.1 dpkg-source: info: unpacking shasta_0.11.1.orig.tar.gz dpkg-source: info: unpacking shasta_0.11.1-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1783257/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='03eb61ba854845ee8f0d21f530ce21d0' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='1783257' 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.3sTbz1Mp/pbuilderrc_C8it --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.3sTbz1Mp/b1 --logfile b1/build.log shasta_0.11.1-1.dsc' SUDO_GID='110' SUDO_UID='105' 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 ionos5-amd64 6.5.0-0.deb12.4-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.5.10-1~bpo12+1 (2023-11-23) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 2023 bash -rwxr-xr-x 3 root root 39224 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 39224 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 39224 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 14568 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 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 2023 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 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 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 85600 Mar 23 2023 findmnt -rwsr-xr-x 1 root root 35128 Mar 23 2023 fusermount -rwxr-xr-x 1 root root 203152 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 98136 Apr 10 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 2022 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 2023 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 23 2023 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 23 2023 more -rwsr-xr-x 1 root root 59704 Mar 23 2023 mount -rwxr-xr-x 1 root root 18744 Mar 23 2023 mountpoint -rwxr-xr-x 1 root root 142968 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 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Jul 28 2023 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 23 2023 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 2023 tar -rwxr-xr-x 1 root root 14520 Jul 28 2023 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 23 2023 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 23 2023 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 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/1783257/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: amd64 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, dh-exec, cmake, patchelf, chrpath, libboost-all-dev, libpng-dev, ncbi-blast+, python3-sphinx, python3-dev, libseqan2-dev, libspoa-dev, python3-pybind11, libcpu-features-dev, libcereal-dev, libblas-dev, liblapack-dev, gfortran dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 18148 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 dh-exec; however: Package dh-exec is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on patchelf; however: Package patchelf is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath is not installed. pbuilder-satisfydepends-dummy depends on libboost-all-dev; however: Package libboost-all-dev is not installed. pbuilder-satisfydepends-dummy depends on libpng-dev; however: Package libpng-dev is not installed. pbuilder-satisfydepends-dummy depends on ncbi-blast+; however: Package ncbi-blast+ is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python3-dev; however: Package python3-dev is not installed. pbuilder-satisfydepends-dummy depends on libseqan2-dev; however: Package libseqan2-dev is not installed. pbuilder-satisfydepends-dummy depends on libspoa-dev; however: Package libspoa-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-pybind11; however: Package python3-pybind11 is not installed. pbuilder-satisfydepends-dummy depends on libcpu-features-dev; however: Package libcpu-features-dev is not installed. pbuilder-satisfydepends-dummy depends on libcereal-dev; however: Package libcereal-dev is not installed. pbuilder-satisfydepends-dummy depends on libblas-dev; however: Package libblas-dev is not installed. pbuilder-satisfydepends-dummy depends on liblapack-dev; however: Package liblapack-dev is not installed. pbuilder-satisfydepends-dummy depends on gfortran; however: Package gfortran is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} chrpath{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} gfortran{a} gfortran-12{a} groff-base{a} ibverbs-providers{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libblas-dev{a} libblas3{a} libboost-all-dev{a} libboost-atomic-dev{a} libboost-atomic1.74-dev{a} libboost-atomic1.74.0{a} libboost-chrono-dev{a} libboost-chrono1.74-dev{a} libboost-chrono1.74.0{a} libboost-container-dev{a} libboost-container1.74-dev{a} libboost-container1.74.0{a} libboost-context-dev{a} libboost-context1.74-dev{a} libboost-context1.74.0{a} libboost-coroutine-dev{a} libboost-coroutine1.74-dev{a} libboost-coroutine1.74.0{a} libboost-date-time-dev{a} libboost-date-time1.74-dev{a} libboost-date-time1.74.0{a} libboost-dev{a} libboost-exception-dev{a} libboost-exception1.74-dev{a} libboost-fiber-dev{a} libboost-fiber1.74-dev{a} libboost-fiber1.74.0{a} libboost-filesystem-dev{a} libboost-filesystem1.74-dev{a} libboost-filesystem1.74.0{a} libboost-graph-dev{a} libboost-graph-parallel-dev{a} libboost-graph-parallel1.74-dev{a} libboost-graph-parallel1.74.0{a} libboost-graph1.74-dev{a} libboost-graph1.74.0{a} libboost-iostreams-dev{a} libboost-iostreams1.74-dev{a} libboost-locale-dev{a} libboost-locale1.74-dev{a} libboost-locale1.74.0{a} libboost-log-dev{a} libboost-log1.74-dev{a} libboost-log1.74.0{a} libboost-math-dev{a} libboost-math1.74-dev{a} libboost-math1.74.0{a} libboost-mpi-dev{a} libboost-mpi-python-dev{a} libboost-mpi-python1.74-dev{a} libboost-mpi-python1.74.0{a} libboost-mpi1.74-dev{a} libboost-mpi1.74.0{a} libboost-nowide-dev{a} libboost-nowide1.74-dev{a} libboost-nowide1.74.0{a} libboost-numpy-dev{a} libboost-numpy1.74-dev{a} libboost-numpy1.74.0{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost-python-dev{a} libboost-python1.74-dev{a} libboost-python1.74.0{a} libboost-random-dev{a} libboost-random1.74-dev{a} libboost-random1.74.0{a} libboost-regex-dev{a} libboost-regex1.74-dev{a} libboost-regex1.74.0{a} libboost-serialization-dev{a} libboost-serialization1.74-dev{a} libboost-serialization1.74.0{a} libboost-stacktrace-dev{a} libboost-stacktrace1.74-dev{a} libboost-stacktrace1.74.0{a} libboost-system-dev{a} libboost-system1.74-dev{a} libboost-system1.74.0{a} libboost-test-dev{a} libboost-test1.74-dev{a} libboost-test1.74.0{a} libboost-thread-dev{a} libboost-thread1.74-dev{a} libboost-thread1.74.0{a} libboost-timer-dev{a} libboost-timer1.74-dev{a} libboost-timer1.74.0{a} libboost-tools-dev{a} libboost-type-erasure-dev{a} libboost-type-erasure1.74-dev{a} libboost-type-erasure1.74.0{a} libboost-wave-dev{a} libboost-wave1.74-dev{a} libboost-wave1.74.0{a} libboost1.74-dev{a} libboost1.74-tools-dev{a} libbrotli1{a} libbsd0{a} libcbor0.8{a} libcereal-dev{a} libcpu-features-dev{a} libcurl4{a} libdebhelper-perl{a} libedit2{a} libelf1{a} libevent-2.1-7{a} libevent-core-2.1-7{a} libevent-dev{a} libevent-extra-2.1-7{a} libevent-openssl-2.1-7{a} libevent-pthreads-2.1-7{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libgfortran-12-dev{a} libgfortran5{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibverbs-dev{a} libibverbs1{a} libicu-dev{a} libicu72{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} libjsoncpp25{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblmdb0{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1{a} libmbedcrypto7{a} libmbedtls14{a} libmbedx509-1{a} libmunge2{a} libnghttp2-14{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3{a} libpciaccess0{a} libpcre3{a} libpipeline1{a} libpmix-dev{a} libpmix2{a} libpng-dev{a} libpng16-16{a} libproc2-0{a} libpsl5{a} libpsm-infinipath1{a} libpsm2-2{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.11{a} libpython3.11-dev{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} librdmacm1{a} libreadline8{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libseqan2-dev{a} libspoa-dev{a} libspoa7.0.0{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libucx0{a} libuv1{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} m4{a} man-db{a} media-types{a} mpi-default-bin{a} mpi-default-dev{a} ncbi-blast+{a} ncbi-data{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} openssl{a} patchelf{a} po-debconf{a} procps{a} pybind11-dev{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-dev{a} python3-distutils{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-jinja2{a} python3-lib2to3{a} python3-markupsafe{a} python3-minimal{a} python3-packaging{a} python3-pkg-resources{a} python3-pybind11{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-six{a} python3-snowballstemmer{a} python3-sphinx{a} python3-tz{a} python3-urllib3{a} python3.11{a} python3.11-dev{a} python3.11-minimal{a} rapidjson-dev{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common libarchive-cpio-perl libcoarrays-openmpi-dev libeigen3-dev libjson-xs-perl libldap-common libmail-sendmail-perl libpaper-utils libpng-tools libsasl2-modules lynx psmisc publicsuffix python3-numpy python3-pil wget xauth 0 packages upgraded, 275 newly installed, 0 to remove and 0 not upgraded. Need to get 152 MB of archives. After unpacking 852 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get: 11 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB] Get: 13 http://deb.debian.org/debian bookworm/main amd64 tzdata all 2023c-5+deb12u1 [296 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 libproc2-0 amd64 2:4.0.2-3 [62.8 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 procps amd64 2:4.0.2-3 [709 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.11-1~deb12u2 [1419 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 23 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 libcbor0.8 amd64 0.8.0-2+b1 [27.4 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 libfido2-1 amd64 1.12.0-2+b1 [77.2 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 openssh-client amd64 1:9.2p1-2+deb12u1 [989 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 34 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 35 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 36 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 37 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 38 http://deb.debian.org/debian bookworm/main amd64 chrpath amd64 0.16-2+b1 [17.1 kB] Get: 39 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 40 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 libarchive13 amd64 3.6.2-1 [343 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get: 43 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get: 44 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get: 45 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get: 46 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get: 47 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get: 48 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 49 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get: 50 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-10+deb12u4 [390 kB] Get: 51 http://deb.debian.org/debian bookworm/main amd64 libjsoncpp25 amd64 1.9.5-4 [78.6 kB] Get: 52 http://deb.debian.org/debian bookworm/main amd64 librhash0 amd64 1.4.3-3 [134 kB] Get: 53 http://deb.debian.org/debian bookworm/main amd64 libuv1 amd64 1.44.2-1 [140 kB] Get: 54 http://deb.debian.org/debian bookworm/main amd64 cmake-data all 3.25.1-1 [2026 kB] Get: 55 http://deb.debian.org/debian bookworm/main amd64 cmake amd64 3.25.1-1 [8692 kB] Get: 56 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 57 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 58 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 59 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 60 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 61 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 63 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 64 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 65 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 66 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 67 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 68 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 69 http://deb.debian.org/debian bookworm/main amd64 dh-exec amd64 0.27 [27.8 kB] Get: 70 http://deb.debian.org/debian bookworm/main amd64 python3-lib2to3 all 3.11.2-3 [76.3 kB] Get: 71 http://deb.debian.org/debian bookworm/main amd64 python3-distutils all 3.11.2-3 [131 kB] Get: 72 http://deb.debian.org/debian bookworm/main amd64 dh-python all 5.20230130+deb12u1 [104 kB] Get: 73 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get: 74 http://deb.debian.org/debian bookworm/main amd64 docutils-common all 0.19+dfsg-6 [127 kB] Get: 75 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get: 76 http://deb.debian.org/debian bookworm/main amd64 libgfortran-12-dev amd64 12.2.0-14 [834 kB] Get: 77 http://deb.debian.org/debian bookworm/main amd64 gfortran-12 amd64 12.2.0-14 [10.2 MB] Get: 78 http://deb.debian.org/debian bookworm/main amd64 gfortran amd64 4:12.2.0-3 [1428 B] Get: 79 http://deb.debian.org/debian bookworm/main amd64 libnl-3-200 amd64 3.7.0-0.2+b1 [63.1 kB] Get: 80 http://deb.debian.org/debian bookworm/main amd64 libnl-route-3-200 amd64 3.7.0-0.2+b1 [185 kB] Get: 81 http://deb.debian.org/debian bookworm/main amd64 libibverbs1 amd64 44.0-2 [60.7 kB] Get: 82 http://deb.debian.org/debian bookworm/main amd64 ibverbs-providers amd64 44.0-2 [335 kB] Get: 83 http://deb.debian.org/debian bookworm/main amd64 icu-devtools amd64 72.1-3 [206 kB] Get: 84 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get: 85 http://deb.debian.org/debian bookworm/main amd64 libblas-dev amd64 3.11.0-2 [158 kB] Get: 86 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21 [9508 kB] Get: 87 http://deb.debian.org/debian bookworm/main amd64 libboost-dev amd64 1.74.0.3 [4548 B] Get: 88 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-tools-dev amd64 1.74.0+ds1-21 [1428 kB] Get: 89 http://deb.debian.org/debian bookworm/main amd64 libboost-tools-dev amd64 1.74.0.3 [4508 B] Get: 90 http://deb.debian.org/debian bookworm/main amd64 libboost-atomic1.74.0 amd64 1.74.0+ds1-21 [220 kB] Get: 91 http://deb.debian.org/debian bookworm/main amd64 libboost-atomic1.74-dev amd64 1.74.0+ds1-21 [221 kB] Get: 92 http://deb.debian.org/debian bookworm/main amd64 libboost-atomic-dev amd64 1.74.0.3 [4640 B] Get: 93 http://deb.debian.org/debian bookworm/main amd64 libboost-chrono1.74.0 amd64 1.74.0+ds1-21 [228 kB] Get: 94 http://deb.debian.org/debian bookworm/main amd64 libboost-chrono1.74-dev amd64 1.74.0+ds1-21 [235 kB] Get: 95 http://deb.debian.org/debian bookworm/main amd64 libboost-chrono-dev amd64 1.74.0.3 [4960 B] Get: 96 http://deb.debian.org/debian bookworm/main amd64 libboost-container1.74.0 amd64 1.74.0+ds1-21 [246 kB] Get: 97 http://deb.debian.org/debian bookworm/main amd64 libboost-container1.74-dev amd64 1.74.0+ds1-21 [250 kB] Get: 98 http://deb.debian.org/debian bookworm/main amd64 libboost-container-dev amd64 1.74.0.3 [4812 B] Get: 99 http://deb.debian.org/debian bookworm/main amd64 libboost-date-time1.74.0 amd64 1.74.0+ds1-21 [217 kB] Get: 100 http://deb.debian.org/debian bookworm/main amd64 libboost-serialization1.74.0 amd64 1.74.0+ds1-21 [317 kB] Get: 101 http://deb.debian.org/debian bookworm/main amd64 libboost-serialization1.74-dev amd64 1.74.0+ds1-21 [359 kB] Get: 102 http://deb.debian.org/debian bookworm/main amd64 libboost-date-time1.74-dev amd64 1.74.0+ds1-21 [226 kB] Get: 103 http://deb.debian.org/debian bookworm/main amd64 libboost-system1.74.0 amd64 1.74.0+ds1-21 [218 kB] Get: 104 http://deb.debian.org/debian bookworm/main amd64 libboost-system1.74-dev amd64 1.74.0+ds1-21 [219 kB] Get: 105 http://deb.debian.org/debian bookworm/main amd64 libboost-thread1.74.0 amd64 1.74.0+ds1-21 [257 kB] Get: 106 http://deb.debian.org/debian bookworm/main amd64 libboost-thread1.74-dev amd64 1.74.0+ds1-21 [267 kB] Get: 107 http://deb.debian.org/debian bookworm/main amd64 libboost-context1.74.0 amd64 1.74.0+ds1-21 [219 kB] Get: 108 http://deb.debian.org/debian bookworm/main amd64 libboost-context1.74-dev amd64 1.74.0+ds1-21 [220 kB] Get: 109 http://deb.debian.org/debian bookworm/main amd64 libboost-context-dev amd64 1.74.0.3 [4540 B] Get: 110 http://deb.debian.org/debian bookworm/main amd64 libboost-coroutine1.74.0 amd64 1.74.0+ds1-21 [234 kB] Get: 111 http://deb.debian.org/debian bookworm/main amd64 libboost-coroutine1.74-dev amd64 1.74.0+ds1-21 [241 kB] Get: 112 http://deb.debian.org/debian bookworm/main amd64 libboost-coroutine-dev amd64 1.74.0.3 [4608 B] Get: 113 http://deb.debian.org/debian bookworm/main amd64 libboost-date-time-dev amd64 1.74.0.3 [4332 B] Get: 114 http://deb.debian.org/debian bookworm/main amd64 libboost-exception1.74-dev amd64 1.74.0+ds1-21 [217 kB] Get: 115 http://deb.debian.org/debian bookworm/main amd64 libboost-exception-dev amd64 1.74.0.3 [4320 B] Get: 116 http://deb.debian.org/debian bookworm/main amd64 libboost-filesystem1.74.0 amd64 1.74.0+ds1-21 [258 kB] Get: 117 http://deb.debian.org/debian bookworm/main amd64 libboost-filesystem1.74-dev amd64 1.74.0+ds1-21 [279 kB] Get: 118 http://deb.debian.org/debian bookworm/main amd64 libboost-fiber1.74.0 amd64 1.74.0+ds1-21 [240 kB] Get: 119 http://deb.debian.org/debian bookworm/main amd64 libboost-fiber1.74-dev amd64 1.74.0+ds1-21 [251 kB] Get: 120 http://deb.debian.org/debian bookworm/main amd64 libboost-fiber-dev amd64 1.74.0.3 [4764 B] Get: 121 http://deb.debian.org/debian bookworm/main amd64 libboost-filesystem-dev amd64 1.74.0.3 [4368 B] Get: 122 http://deb.debian.org/debian bookworm/main amd64 libboost-regex1.74.0 amd64 1.74.0+ds1-21 [487 kB] Get: 123 http://deb.debian.org/debian bookworm/main amd64 libboost-graph1.74.0 amd64 1.74.0+ds1-21 [301 kB] Get: 124 http://deb.debian.org/debian bookworm/main amd64 libicu-dev amd64 72.1-3 [10.3 MB] Get: 125 http://deb.debian.org/debian bookworm/main amd64 libboost-regex1.74-dev amd64 1.74.0+ds1-21 [557 kB] Get: 126 http://deb.debian.org/debian bookworm/main amd64 libboost-test1.74.0 amd64 1.74.0+ds1-21 [453 kB] Get: 127 http://deb.debian.org/debian bookworm/main amd64 libboost-test1.74-dev amd64 1.74.0+ds1-21 [526 kB] Get: 128 http://deb.debian.org/debian bookworm/main amd64 libboost-graph1.74-dev amd64 1.74.0+ds1-21 [1480 kB] Get: 129 http://deb.debian.org/debian bookworm/main amd64 libboost-graph-dev amd64 1.74.0.3 [4436 B] Get: 130 http://deb.debian.org/debian bookworm/main amd64 libevent-core-2.1-7 amd64 2.1.12-stable-8 [131 kB] Get: 131 http://deb.debian.org/debian bookworm/main amd64 libevent-pthreads-2.1-7 amd64 2.1.12-stable-8 [53.6 kB] Get: 132 http://deb.debian.org/debian bookworm/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.2 [168 kB] Get: 133 http://deb.debian.org/debian bookworm/main amd64 libnuma1 amd64 2.0.16-1 [21.0 kB] Get: 134 http://deb.debian.org/debian bookworm/main amd64 libpsm2-2 amd64 11.2.185-2 [180 kB] Get: 135 http://deb.debian.org/debian bookworm/main amd64 librdmacm1 amd64 44.0-2 [68.6 kB] Get: 136 http://deb.debian.org/debian bookworm/main amd64 libfabric1 amd64 1.17.0-3 [627 kB] Get: 137 http://deb.debian.org/debian bookworm/main amd64 libhwloc15 amd64 2.9.0-1 [154 kB] Get: 138 http://deb.debian.org/debian bookworm/main amd64 libmunge2 amd64 0.5.15-2 [19.5 kB] Get: 139 http://deb.debian.org/debian bookworm/main amd64 libpciaccess0 amd64 0.17-2 [51.4 kB] Get: 140 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 141 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 142 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get: 143 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get: 144 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB] Get: 145 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get: 146 http://deb.debian.org/debian bookworm/main amd64 libxnvctrl0 amd64 525.85.05-3~deb12u1 [13.5 kB] Get: 147 http://deb.debian.org/debian bookworm/main amd64 ocl-icd-libopencl1 amd64 2.3.1-1 [43.0 kB] Get: 148 http://deb.debian.org/debian bookworm/main amd64 libhwloc-plugins amd64 2.9.0-1 [17.5 kB] Get: 149 http://deb.debian.org/debian bookworm/main amd64 libpmix2 amd64 4.2.2-1+deb12u1 [622 kB] Get: 150 http://deb.debian.org/debian bookworm/main amd64 libucx0 amd64 1.13.1-1 [860 kB] Get: 151 http://deb.debian.org/debian bookworm/main amd64 libopenmpi3 amd64 4.1.4-3+b1 [2422 kB] Get: 152 http://deb.debian.org/debian bookworm/main amd64 libboost-mpi1.74.0 amd64 1.74.0+ds1-21 [258 kB] Get: 153 http://deb.debian.org/debian bookworm/main amd64 libboost-graph-parallel1.74.0 amd64 1.74.0+ds1-21 [266 kB] Get: 154 http://deb.debian.org/debian bookworm/main amd64 libboost-graph-parallel1.74-dev amd64 1.74.0+ds1-21 [271 kB] Get: 155 http://deb.debian.org/debian bookworm/main amd64 libboost-graph-parallel-dev amd64 1.74.0.3 [4460 B] Get: 156 http://deb.debian.org/debian bookworm/main amd64 libboost-iostreams1.74-dev amd64 1.74.0+ds1-21 [248 kB] Get: 157 http://deb.debian.org/debian bookworm/main amd64 libboost-iostreams-dev amd64 1.74.0.3 [4316 B] Get: 158 http://deb.debian.org/debian bookworm/main amd64 libboost-locale1.74.0 amd64 1.74.0+ds1-21 [449 kB] Get: 159 http://deb.debian.org/debian bookworm/main amd64 libboost-locale1.74-dev amd64 1.74.0+ds1-21 [551 kB] Get: 160 http://deb.debian.org/debian bookworm/main amd64 libboost-locale-dev amd64 1.74.0.3 [4660 B] Get: 161 http://deb.debian.org/debian bookworm/main amd64 libboost-log1.74.0 amd64 1.74.0+ds1-21 [599 kB] Get: 162 http://deb.debian.org/debian bookworm/main amd64 libboost-log1.74-dev amd64 1.74.0+ds1-21 [784 kB] Get: 163 http://deb.debian.org/debian bookworm/main amd64 libboost-log-dev amd64 1.74.0.3 [4540 B] Get: 164 http://deb.debian.org/debian bookworm/main amd64 libboost-math1.74.0 amd64 1.74.0+ds1-21 [490 kB] Get: 165 http://deb.debian.org/debian bookworm/main amd64 libboost-math1.74-dev amd64 1.74.0+ds1-21 [564 kB] Get: 166 http://deb.debian.org/debian bookworm/main amd64 libboost-math-dev amd64 1.74.0.3 [4532 B] Get: 167 http://deb.debian.org/debian bookworm/main amd64 openmpi-common all 4.1.4-3 [167 kB] Get: 168 http://deb.debian.org/debian bookworm/main amd64 libnl-3-dev amd64 3.7.0-0.2+b1 [104 kB] Get: 169 http://deb.debian.org/debian bookworm/main amd64 libnl-route-3-dev amd64 3.7.0-0.2+b1 [203 kB] Get: 170 http://deb.debian.org/debian bookworm/main amd64 libibverbs-dev amd64 44.0-2 [633 kB] Get: 171 http://deb.debian.org/debian bookworm/main amd64 libnuma-dev amd64 2.0.16-1 [35.0 kB] Get: 172 http://deb.debian.org/debian bookworm/main amd64 libltdl7 amd64 2.4.7-5 [393 kB] Get: 173 http://deb.debian.org/debian bookworm/main amd64 libltdl-dev amd64 2.4.7-5 [164 kB] Get: 174 http://deb.debian.org/debian bookworm/main amd64 libhwloc-dev amd64 2.9.0-1 [241 kB] Get: 175 http://deb.debian.org/debian bookworm/main amd64 libevent-2.1-7 amd64 2.1.12-stable-8 [180 kB] Get: 176 http://deb.debian.org/debian bookworm/main amd64 libevent-extra-2.1-7 amd64 2.1.12-stable-8 [107 kB] Get: 177 http://deb.debian.org/debian bookworm/main amd64 libevent-openssl-2.1-7 amd64 2.1.12-stable-8 [60.6 kB] Get: 178 http://deb.debian.org/debian bookworm/main amd64 libevent-dev amd64 2.1.12-stable-8 [305 kB] Get: 179 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] Get: 180 http://deb.debian.org/debian bookworm/main amd64 libpmix-dev amd64 4.2.2-1+deb12u1 [902 kB] Get: 181 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 182 http://deb.debian.org/debian bookworm/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 183 http://deb.debian.org/debian bookworm/main amd64 openmpi-bin amd64 4.1.4-3+b1 [226 kB] Get: 184 http://deb.debian.org/debian bookworm/main amd64 libopenmpi-dev amd64 4.1.4-3+b1 [970 kB] Get: 185 http://deb.debian.org/debian bookworm/main amd64 mpi-default-dev amd64 1.14 [5548 B] Get: 186 http://deb.debian.org/debian bookworm/main amd64 libboost-mpi1.74-dev amd64 1.74.0+ds1-21 [277 kB] Get: 187 http://deb.debian.org/debian bookworm/main amd64 libboost-mpi-dev amd64 1.74.0.3 [4420 B] Get: 188 http://deb.debian.org/debian bookworm/main amd64 libboost-python1.74.0 amd64 1.74.0+ds1-21 [289 kB] Get: 189 http://deb.debian.org/debian bookworm/main amd64 mpi-default-bin amd64 1.14 [4752 B] Get: 190 http://deb.debian.org/debian bookworm/main amd64 libboost-mpi-python1.74.0 amd64 1.74.0+ds1-21 [341 kB] Get: 191 http://deb.debian.org/debian bookworm/main amd64 libboost-mpi-python1.74-dev amd64 1.74.0+ds1-21 [224 kB] Get: 192 http://deb.debian.org/debian bookworm/main amd64 libboost-mpi-python-dev amd64 1.74.0.3 [4456 B] Get: 193 http://deb.debian.org/debian bookworm/main amd64 libboost-numpy1.74.0 amd64 1.74.0+ds1-21 [229 kB] Get: 194 http://deb.debian.org/debian bookworm/main amd64 libboost-numpy1.74-dev amd64 1.74.0+ds1-21 [232 kB] Get: 195 http://deb.debian.org/debian bookworm/main amd64 libboost-numpy-dev amd64 1.74.0.3 [4376 B] Get: 196 http://deb.debian.org/debian bookworm/main amd64 libboost-program-options1.74.0 amd64 1.74.0+ds1-21 [329 kB] Get: 197 http://deb.debian.org/debian bookworm/main amd64 libboost-program-options1.74-dev amd64 1.74.0+ds1-21 [357 kB] Get: 198 http://deb.debian.org/debian bookworm/main amd64 libboost-program-options-dev amd64 1.74.0.3 [4340 B] Get: 199 http://deb.debian.org/debian bookworm/main amd64 libpython3.11 amd64 3.11.2-6 [1988 kB] Get: 200 http://deb.debian.org/debian bookworm/main amd64 libexpat1-dev amd64 2.5.0-1 [150 kB] Get: 201 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-dev amd64 3.11.2-6 [4738 kB] Get: 202 http://deb.debian.org/debian bookworm/main amd64 libpython3-dev amd64 3.11.2-1+b1 [9572 B] Get: 203 http://deb.debian.org/debian bookworm/main amd64 python3.11-dev amd64 3.11.2-6 [615 kB] Get: 204 http://deb.debian.org/debian bookworm/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 205 http://deb.debian.org/debian bookworm/main amd64 libjs-sphinxdoc all 5.3.0-4 [130 kB] Get: 206 http://deb.debian.org/debian bookworm/main amd64 python3-dev amd64 3.11.2-1+b1 [26.2 kB] Get: 207 http://deb.debian.org/debian bookworm/main amd64 libboost-python1.74-dev amd64 1.74.0+ds1-21 [310 kB] Get: 208 http://deb.debian.org/debian bookworm/main amd64 libboost-python-dev amd64 1.74.0.3 [4632 B] Get: 209 http://deb.debian.org/debian bookworm/main amd64 libboost-random1.74.0 amd64 1.74.0+ds1-21 [226 kB] Get: 210 http://deb.debian.org/debian bookworm/main amd64 libboost-random1.74-dev amd64 1.74.0+ds1-21 [229 kB] Get: 211 http://deb.debian.org/debian bookworm/main amd64 libboost-random-dev amd64 1.74.0.3 [4336 B] Get: 212 http://deb.debian.org/debian bookworm/main amd64 libboost-regex-dev amd64 1.74.0.3 [4600 B] Get: 213 http://deb.debian.org/debian bookworm/main amd64 libboost-serialization-dev amd64 1.74.0.3 [4560 B] Get: 214 http://deb.debian.org/debian bookworm/main amd64 libboost-stacktrace1.74.0 amd64 1.74.0+ds1-21 [260 kB] Get: 215 http://deb.debian.org/debian bookworm/main amd64 libboost-stacktrace1.74-dev amd64 1.74.0+ds1-21 [232 kB] Get: 216 http://deb.debian.org/debian bookworm/main amd64 libboost-stacktrace-dev amd64 1.74.0.3 [4328 B] Get: 217 http://deb.debian.org/debian bookworm/main amd64 libboost-system-dev amd64 1.74.0.3 [4468 B] Get: 218 http://deb.debian.org/debian bookworm/main amd64 libboost-test-dev amd64 1.74.0.3 [4368 B] Get: 219 http://deb.debian.org/debian bookworm/main amd64 libboost-thread-dev amd64 1.74.0.3 [4356 B] Get: 220 http://deb.debian.org/debian bookworm/main amd64 libboost-timer1.74.0 amd64 1.74.0+ds1-21 [226 kB] Get: 221 http://deb.debian.org/debian bookworm/main amd64 libboost-timer1.74-dev amd64 1.74.0+ds1-21 [229 kB] Get: 222 http://deb.debian.org/debian bookworm/main amd64 libboost-timer-dev amd64 1.74.0.3 [4456 B] Get: 223 http://deb.debian.org/debian bookworm/main amd64 libboost-type-erasure1.74.0 amd64 1.74.0+ds1-21 [233 kB] Get: 224 http://deb.debian.org/debian bookworm/main amd64 libboost-type-erasure1.74-dev amd64 1.74.0+ds1-21 [236 kB] Get: 225 http://deb.debian.org/debian bookworm/main amd64 libboost-type-erasure-dev amd64 1.74.0.3 [4428 B] Get: 226 http://deb.debian.org/debian bookworm/main amd64 libboost-wave1.74.0 amd64 1.74.0+ds1-21 [418 kB] Get: 227 http://deb.debian.org/debian bookworm/main amd64 libboost-wave1.74-dev amd64 1.74.0+ds1-21 [473 kB] Get: 228 http://deb.debian.org/debian bookworm/main amd64 libboost-wave-dev amd64 1.74.0.3 [4360 B] Get: 229 http://deb.debian.org/debian bookworm/main amd64 libboost-nowide1.74.0 amd64 1.74.0+ds1-21 [219 kB] Get: 230 http://deb.debian.org/debian bookworm/main amd64 libboost-nowide1.74-dev amd64 1.74.0+ds1-21 [220 kB] Get: 231 http://deb.debian.org/debian bookworm/main amd64 libboost-nowide-dev amd64 1.74.0.3 [4392 B] Get: 232 http://deb.debian.org/debian bookworm/main amd64 libboost-all-dev amd64 1.74.0.3 [4680 B] Get: 233 http://deb.debian.org/debian bookworm/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.1 [97.7 kB] Get: 234 http://deb.debian.org/debian bookworm/main amd64 libcereal-dev amd64 1.3.2+dfsg-4 [221 kB] Get: 235 http://deb.debian.org/debian bookworm/main amd64 libcpu-features-dev amd64 0.7.0-1 [19.7 kB] Get: 236 http://deb.debian.org/debian bookworm/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get: 237 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get: 238 http://deb.debian.org/debian bookworm/main amd64 liblapack-dev amd64 3.11.0-2 [4631 kB] Get: 239 http://deb.debian.org/debian bookworm/main amd64 liblmdb0 amd64 0.9.24-1 [45.0 kB] Get: 240 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.3-1 [277 kB] Get: 241 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.3-1 [128 kB] Get: 242 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.3-1 [163 kB] Get: 243 http://deb.debian.org/debian bookworm/main amd64 libpcre3 amd64 2:8.39-15 [341 kB] Get: 244 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get: 245 http://deb.debian.org/debian bookworm/main amd64 libpng-dev amd64 1.6.39-2 [359 kB] Get: 246 http://deb.debian.org/debian bookworm/main amd64 libseqan2-dev all 2.4.0+dfsg-15 [1215 kB] Get: 247 http://deb.debian.org/debian bookworm/main amd64 libspoa7.0.0 amd64 4.0.8-1 [68.4 kB] Get: 248 http://deb.debian.org/debian bookworm/main amd64 libspoa-dev amd64 4.0.8-1 [9356 B] Get: 249 http://deb.debian.org/debian bookworm/main amd64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get: 250 http://deb.debian.org/debian bookworm/main amd64 ncbi-blast+ amd64 2.12.0+ds-3+b1 [11.9 MB] Get: 251 http://deb.debian.org/debian bookworm/main amd64 patchelf amd64 0.14.3-1+b1 [65.5 kB] Get: 252 http://deb.debian.org/debian bookworm/main amd64 pybind11-dev all 2.10.3-1 [186 kB] Get: 253 http://deb.debian.org/debian bookworm/main amd64 python-babel-localedata all 2.10.3-1 [5615 kB] Get: 254 http://deb.debian.org/debian bookworm/main amd64 python3-alabaster all 0.7.12-1 [20.8 kB] Get: 255 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB] Get: 256 http://deb.debian.org/debian bookworm/main amd64 python3-tz all 2022.7.1-4 [30.1 kB] Get: 257 http://deb.debian.org/debian bookworm/main amd64 python3-babel all 2.10.3-1 [103 kB] Get: 258 http://deb.debian.org/debian bookworm/main amd64 python3-certifi all 2022.9.24-1 [153 kB] Get: 259 http://deb.debian.org/debian bookworm/main amd64 python3-chardet all 5.1.0+dfsg-2 [110 kB] Get: 260 http://deb.debian.org/debian bookworm/main amd64 python3-charset-normalizer all 3.0.1-2 [49.3 kB] Get: 261 http://deb.debian.org/debian bookworm/main amd64 python3-roman all 3.3-3 [9880 B] Get: 262 http://deb.debian.org/debian bookworm/main amd64 python3-docutils all 0.19+dfsg-6 [382 kB] Get: 263 http://deb.debian.org/debian bookworm/main amd64 python3-idna all 3.3-1 [39.4 kB] Get: 264 http://deb.debian.org/debian bookworm/main amd64 python3-imagesize all 1.4.1-1 [6688 B] Get: 265 http://deb.debian.org/debian bookworm/main amd64 python3-markupsafe amd64 2.1.2-1+b1 [13.2 kB] Get: 266 http://deb.debian.org/debian bookworm/main amd64 python3-jinja2 all 3.1.2-1 [119 kB] Get: 267 http://deb.debian.org/debian bookworm/main amd64 python3-packaging all 23.0-1 [32.5 kB] Get: 268 http://deb.debian.org/debian bookworm/main amd64 python3-pybind11 all 2.10.3-1 [199 kB] Get: 269 http://deb.debian.org/debian bookworm/main amd64 python3-pygments all 2.14.0+dfsg-1 [783 kB] Get: 270 http://deb.debian.org/debian bookworm/main amd64 python3-six all 1.16.0-4 [17.5 kB] Get: 271 http://deb.debian.org/debian bookworm/main amd64 python3-urllib3 all 1.26.12-1 [117 kB] Get: 272 http://deb.debian.org/debian bookworm/main amd64 python3-requests all 2.28.1+dfsg-1 [67.9 kB] Get: 273 http://deb.debian.org/debian bookworm/main amd64 python3-snowballstemmer all 2.2.0-2 [57.8 kB] Get: 274 http://deb.debian.org/debian bookworm/main amd64 sphinx-common all 5.3.0-4 [653 kB] Get: 275 http://deb.debian.org/debian bookworm/main amd64 python3-sphinx all 5.3.0-4 [549 kB] Fetched 152 MB in 2s (95.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (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 ... 18148 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6) ... Setting up libexpat1:amd64 (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 ... 18464 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_amd64.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:amd64. Preparing to unpack .../3-libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_amd64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (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 ... 18898 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_amd64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package tzdata. Preparing to unpack .../002-tzdata_2023c-5+deb12u1_all.deb ... Unpacking tzdata (2023c-5+deb12u1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../003-libproc2-0_2%3a4.0.2-3_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../004-procps_2%3a4.0.2-3_amd64.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../006-openssl_3.0.11-1~deb12u2_amd64.deb ... Unpacking openssl (3.0.11-1~deb12u2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../007-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../008-libmagic-mgc_1%3a5.44-3_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../009-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../010-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../011-gettext-base_0.21-12_amd64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../012-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../013-groff-base_1.22.4-10_amd64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../014-bsdextrautils_2.38.1-5+b1_amd64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../015-libpipeline1_1.5.7-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../016-man-db_2.11.2-2_amd64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../017-libbsd0_0.11.7-2_amd64.deb ... Unpacking libbsd0:amd64 (0.11.7-2) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../018-libedit2_3.1-20221030-2_amd64.deb ... Unpacking libedit2:amd64 (3.1-20221030-2) ... Selecting previously unselected package libcbor0.8:amd64. Preparing to unpack .../019-libcbor0.8_0.8.0-2+b1_amd64.deb ... Unpacking libcbor0.8:amd64 (0.8.0-2+b1) ... Selecting previously unselected package libfido2-1:amd64. Preparing to unpack .../020-libfido2-1_1.12.0-2+b1_amd64.deb ... Unpacking libfido2-1:amd64 (1.12.0-2+b1) ... Selecting previously unselected package openssh-client. Preparing to unpack .../021-openssh-client_1%3a9.2p1-2+deb12u1_amd64.deb ... Unpacking openssh-client (1:9.2p1-2+deb12u1) ... Selecting previously unselected package m4. Preparing to unpack .../022-m4_1.4.19-3_amd64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../023-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../024-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../025-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../026-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package chrpath. 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Setting up libcpu-features-dev:amd64 (0.7.0-1) ... Setting up libseqan2-dev (2.4.0+dfsg-15) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up tzdata (2023c-5+deb12u1) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Feb 12 07:41:06 UTC 2025. Universal Time is now: Wed Feb 12 07:41:06 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpcre3:amd64 (2:8.39-15) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libuv1:amd64 (1.44.2-1) ... Setting up libmunge2 (0.5.15-2) ... Setting up libexpat1-dev:amd64 (2.5.0-1) ... Setting up libboost-test1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libboost-program-options-dev:amd64 (1.74.0.3) ... Setting up libmbedcrypto7:amd64 (2.28.3-1) ... 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Setting up sgml-base (1.31) ... Setting up cmake-data (3.25.1-1) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libboost-math1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6.2) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libboost-filesystem1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libboost-date-time1.74.0:amd64 (1.74.0+ds1-21) ... Setting up patchelf (0.14.3-1+b1) ... Setting up libfido2-1:amd64 (1.12.0-2+b1) ... Setting up libboost-python1.74.0 (1.74.0+ds1-21) ... Setting up libboost-fiber1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libboost-stacktrace1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libboost-test1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up openssl (3.0.11-1~deb12u2) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up readline-common (8.2-1.3) ... Setting up libboost-timer1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libicu-dev:amd64 (72.1-3) ... Setting up libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Setting up libboost-filesystem-dev:amd64 (1.74.0.3) ... Setting up chrpath (0.16-2+b1) ... Setting up libblas-dev:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libboost-thread1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libboost-numpy1.74.0 (1.74.0+ds1-21) ... Setting up libevent-pthreads-2.1-7:amd64 (2.1.12-stable-8) ... 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 libboost-log1.74.0 (1.74.0+ds1-21) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libevent-extra-2.1-7:amd64 (2.1.12-stable-8) ... Setting up liblapack3:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libtool (2.4.7-5) ... Setting up libboost-container1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libarchive13:amd64 (3.6.2-1) ... Setting up libboost-chrono-dev:amd64 (1.74.0.3) ... Setting up libboost-math-dev:amd64 (1.74.0.3) ... Setting up libboost-coroutine1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libboost-system-dev:amd64 (1.74.0.3) ... Setting up libpng-dev:amd64 (1.6.39-2) ... Setting up libcereal-dev (1.3.2+dfsg-4) ... Setting up libevent-openssl-2.1-7:amd64 (2.1.12-stable-8) ... Setting up libboost-tools-dev (1.74.0.3) ... Setting up libgfortran-12-dev:amd64 (12.2.0-14) ... Setting up libboost-nowide-dev (1.74.0.3) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up libboost-container-dev:amd64 (1.74.0.3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:amd64 (2.0.16-1) ... Setting up libnl-route-3-200:amd64 (3.7.0-0.2+b1) ... Setting up libboost-test-dev:amd64 (1.74.0.3) ... Setting up dh-autoreconf (20) ... Setting up libltdl-dev:amd64 (2.4.7-5) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up gfortran-12 (12.2.0-14) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libevent-dev (2.1.12-stable-8) ... Setting up liblapack-dev:amd64 (3.11.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libboost-random1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libboost-timer1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libboost-numpy1.74-dev (1.74.0+ds1-21) ... Setting up libjs-sphinxdoc (5.3.0-4) ... Setting up libboost-serialization1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libboost-wave1.74.0:amd64 (1.74.0+ds1-21) ... Setting up dwz (0.15-1) ... Setting up libboost-regex1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libnl-3-dev:amd64 (3.7.0-0.2+b1) ... Setting up groff-base (1.22.4-10) ... Setting up libboost-stacktrace-dev:amd64 (1.74.0.3) ... Setting up xml-core (0.18+nmu1) ... Setting up libcurl4:amd64 (7.88.1-10+deb12u4) ... Setting up libx11-6:amd64 (2:1.8.4-2+deb12u2) ... Setting up libhwloc-dev:amd64 (2.9.0-1) ... Setting up libboost-locale1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libboost-regex-dev:amd64 (1.74.0.3) ... Setting up libboost-timer-dev:amd64 (1.74.0.3) ... Setting up libboost-type-erasure1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libibverbs1:amd64 (44.0-2) ... Setting up libboost-wave1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up ibverbs-providers:amd64 (44.0-2) ... Setting up libspoa-dev:amd64 (4.0.8-1) ... Setting up openssh-client (1:9.2p1-2+deb12u1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up libxext6:amd64 (2:1.3.4-1+b1) ... Setting up libboost-random-dev:amd64 (1.74.0.3) ... Setting up libboost-wave-dev:amd64 (1.74.0.3) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up gfortran (4:12.2.0-3) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libxnvctrl0:amd64 (525.85.05-3~deb12u1) ... Setting up libboost-iostreams1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libnl-route-3-dev:amd64 (3.7.0-0.2+b1) ... Setting up libboost-date-time1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libboost-graph1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up sphinx-common (5.3.0-4) ... Setting up libboost-numpy-dev (1.74.0.3) ... Setting up libboost-serialization-dev:amd64 (1.74.0.3) ... Setting up libboost-date-time-dev:amd64 (1.74.0.3) ... Setting up cmake (3.25.1-1) ... Setting up libboost-thread1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libboost-thread-dev:amd64 (1.74.0.3) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up librdmacm1:amd64 (44.0-2) ... Setting up libboost-graph-dev:amd64 (1.74.0.3) ... Setting up python3.11 (3.11.2-6) ... Setting up libucx0:amd64 (1.13.1-1) ... Setting up libboost-log1.74-dev (1.74.0+ds1-21) ... Setting up libpython3.11:amd64 (3.11.2-6) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up dh-exec (0.27) ... Setting up libboost-iostreams-dev:amd64 (1.74.0.3) ... Setting up libibverbs-dev:amd64 (44.0-2) ... Setting up libhwloc-plugins:amd64 (2.9.0-1) ... Setting up python3-markupsafe (2.1.2-1+b1) ... Setting up libboost-context1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up python3-tz (2022.7.1-4) ... Setting up ncbi-blast+ (2.12.0+ds-3+b1) ... Setting up python3-six (1.16.0-4) ... Setting up libboost-fiber1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up python3-roman (3.3-3) ... Setting up python3-jinja2 (3.1.2-1) ... Setting up python3-packaging (23.0-1) ... Setting up libboost-type-erasure1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-snowballstemmer (2.2.0-2) ... Setting up libpython3.11-dev:amd64 (3.11.2-6) ... Setting up python3-idna (3.3-1) ... Setting up libboost-locale1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up libboost-coroutine1.74-dev:amd64 (1.74.0+ds1-21) ... Setting up libboost-coroutine-dev:amd64 (1.74.0.3) ... Setting up python3-lib2to3 (3.11.2-3) ... Setting up libboost-log-dev (1.74.0.3) ... Setting up python3-pybind11 (2.10.3-1) ... Setting up libboost-fiber-dev:amd64 (1.74.0.3) ... Setting up python3-imagesize (1.4.1-1) ... 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 libfabric1:amd64 (1.17.0-3) ... Setting up libpython3-dev:amd64 (3.11.2-1+b1) ... Setting up libpmix2:amd64 (4.2.2-1+deb12u1) ... Setting up python3-babel (2.10.3-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up python3.11-dev (3.11.2-6) ... Setting up python3-charset-normalizer (3.0.1-2) ... Setting up python3-alabaster (0.7.12-1) ... Setting up libopenmpi3:amd64 (4.1.4-3+b1) ... Setting up libboost-mpi1.74.0 (1.74.0+ds1-21) ... Setting up libboost-locale-dev:amd64 (1.74.0.3) ... Setting up libboost-context-dev:amd64 (1.74.0.3) ... Setting up libboost-type-erasure-dev:amd64 (1.74.0.3) ... Setting up python3-pygments (2.14.0+dfsg-1) ... Setting up python3-chardet (5.1.0+dfsg-2) ... Setting up python3-dev (3.11.2-1+b1) ... Setting up python3-requests (2.28.1+dfsg-1) ... Setting up libboost-graph-parallel1.74.0 (1.74.0+ds1-21) ... Setting up libpmix-dev:amd64 (4.2.2-1+deb12u1) ... Setting up openmpi-bin (4.1.4-3+b1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up mpi-default-bin (1.14) ... Setting up libboost-python1.74-dev (1.74.0+ds1-21) ... Setting up libboost-python-dev (1.74.0.3) ... Setting up libboost-graph-parallel1.74-dev (1.74.0+ds1-21) ... Setting up libopenmpi-dev:amd64 (4.1.4-3+b1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up libboost-mpi-python1.74.0 (1.74.0+ds1-21) ... Setting up libboost-graph-parallel-dev (1.74.0.3) ... Setting up mpi-default-dev (1.14) ... Setting up libboost-mpi1.74-dev (1.74.0+ds1-21) ... Setting up libboost-mpi-python1.74-dev (1.74.0+ds1-21) ... Setting up libboost-mpi-python-dev (1.74.0.3) ... Setting up libboost-mpi-dev (1.74.0.3) ... Setting up libboost-all-dev (1.74.0.3) ... Processing triggers for libc-bin (2.36-9+deb12u3) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.19+dfsg-6) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.19+dfsg-6) ... Setting up python3-sphinx (5.3.0-4) ... 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/shasta-0.11.1/ && 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 > ../shasta_0.11.1-1_source.changes dpkg-buildpackage: info: source package shasta dpkg-buildpackage: info: source version 0.11.1-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3,sphinxdoc dh_clean debian/rules binary dh binary --with python3,sphinxdoc dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/shasta-0.11.1' dh_auto_configure -- -DBUILD_ID=0.11.1 \ -DBUILD_STATIC_EXECUTABLE=OFF \ -DBUILD_DYNAMIC_EXECUTABLE=ON cd obj-x86_64-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/x86_64-linux-gnu -DBUILD_ID=0.11.1 -DBUILD_STATIC_EXECUTABLE=OFF -DBUILD_DYNAMIC_EXECUTABLE=ON .. -- 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 -- Processor architecture is x86_64 -- CMAKE_SYSTEM_NAME is Linux -- BUILD_STATIC_LIBRARY is ON -- BUILD_STATIC_EXECUTABLE is OFF -- BUILD_DYNAMIC_LIBRARY is ON -- BUILD_DYNAMIC_EXECUTABLE is ON -- BUILD_NATIVE is OFF -- BUILD_DEBUG is OFF -- BUILD_ID is: 0.11.1 -- 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 CMAKE_FIND_USE_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/shasta-0.11.1' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/shasta-0.11.1' dh_auto_build cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/shasta-0.11.1 -B/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' make -f staticLibrary/CMakeFiles/shastaStaticLibrary.dir/build.make staticLibrary/CMakeFiles/shastaStaticLibrary.dir/depend make -f dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/build.make dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/depend make[4]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/shasta-0.11.1 /build/reproducible-path/shasta-0.11.1/staticLibrary /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary/CMakeFiles/shastaStaticLibrary.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/shasta-0.11.1 /build/reproducible-path/shasta-0.11.1/dynamicLibrary /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' make -f dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/build.make dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/build make[4]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' make -f staticLibrary/CMakeFiles/shastaStaticLibrary.dir/build.make staticLibrary/CMakeFiles/shastaStaticLibrary.dir/build make[4]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' [ 1%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o [ 1%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o [ 1%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Alignment.cpp.o [ 2%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o [ 3%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AlignmentGraph.cpp.o [ 4%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Align4.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Alignment.cpp.o -MF 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/build/reproducible-path/shasta-0.11.1/src/Align4.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AlignmentGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AlignmentGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp [ 5%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o [ 5%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign.cpp.o [ 5%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign1.cpp.o [ 6%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssembledSegment.cpp [ 7%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o [ 7%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssembledSegment.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Assembler.cpp [ 8%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign1.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign1.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign1.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign1.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign1.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Assembler.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign1.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign1.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign1.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign1.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign3.cpp cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign4.cpp [ 9%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlignmentCandidates.cpp [ 9%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign3.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign3.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign3.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign3.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign3.cpp In file included from /usr/include/c++/12/bits/char_traits.h:46, from /usr/include/c++/12/string:40, from /build/reproducible-path/shasta-0.11.1/src/string.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/PngImage.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:2: In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair; _Args = {pair}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair; _Args = {std::pair}; _Tp = std::pair]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/vector.tcc:117:30, inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘shasta::CompactUndirectedGraph::vertex_descriptor shasta::CompactUndirectedGraph::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.11.1/src/CompactUndirectedGraph.hpp:499:26, inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:239:34: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘vertex.shasta::AlignmentGraphVertex::distance’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’: /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::distance’ was declared here 231 | AlignmentGraphVertex vertex; | ^~~~~~ In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair; _Args = {pair}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair; _Args = {std::pair}; _Tp = std::pair]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/vector.tcc:117:30, inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘shasta::CompactUndirectedGraph::vertex_descriptor shasta::CompactUndirectedGraph::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.11.1/src/CompactUndirectedGraph.hpp:499:26, inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:239:34: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘vertex.shasta::AlignmentGraphVertex::color’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’: /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::color’ was declared here 231 | AlignmentGraphVertex vertex; | ^~~~~~ [ 10%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign4.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign4.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign4.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlign4.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlign4.cpp In file included from /usr/include/c++/12/bits/char_traits.h:46, from /usr/include/c++/12/string:40, from /build/reproducible-path/shasta-0.11.1/src/string.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/PngImage.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:2: In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair; _Args = {pair}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair; _Args = {std::pair}; _Tp = std::pair]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/vector.tcc:117:30, inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘shasta::CompactUndirectedGraph::vertex_descriptor shasta::CompactUndirectedGraph::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.11.1/src/CompactUndirectedGraph.hpp:499:26, inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:239:34: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘vertex.shasta::AlignmentGraphVertex::distance’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’: /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::distance’ was declared here 231 | AlignmentGraphVertex vertex; | ^~~~~~ In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair; _Args = {pair}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair; _Args = {std::pair}; _Tp = std::pair]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/vector.tcc:117:30, inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from ‘shasta::CompactUndirectedGraph::vertex_descriptor shasta::CompactUndirectedGraph::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.11.1/src/CompactUndirectedGraph.hpp:499:26, inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:239:34: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘vertex.shasta::AlignmentGraphVertex::color’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array, 2>&, uint32_t)’: /build/reproducible-path/shasta-0.11.1/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::color’ was declared here 231 | AlignmentGraphVertex vertex; | ^~~~~~ [ 10%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlignmentCandidates.cpp [ 10%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlignmentGraph.cpp [ 11%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlignments.cpp [ 11%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAnalyzePaths.cpp [ 12%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAlignmentGraph.cpp [ 13%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp [ 13%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph2.cpp [ 13%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerCompressedAssemblyGraph.cpp [ 14%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp [ 14%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 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-Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp [ 16%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph2.cpp [ 16%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerCompressedAssemblyGraph.cpp [ 18%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp [ 18%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp [ 18%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-MarkerGraph.cpp [ 19%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Mode3.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Mode3.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Mode3.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Mode3.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-Mode3.cpp [ 20%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerDetangle.cpp [ 20%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-Alignments.cpp [ 21%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-AssemblyGraph.cpp In file included from /usr/include/c++/12/bits/char_traits.h:46, from /usr/include/c++/12/ios:40, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/reproducible-path/shasta-0.11.1/src/iostream.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/ReadId.hpp:11, from /build/reproducible-path/shasta-0.11.1/src/OrientedReadPair.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/Alignment.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/Assembler.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:2: In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge; _Args = {const boost::list_edge&}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge; _Args = {const boost::list_edge&}; _Tp = std::_List_node >]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:713:33, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:2005:32, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:1306:24, inlined from ‘std::pair boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:574:20, inlined from ‘std::pair boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:606:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20, inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:1623:53: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ In file included from /usr/include/boost/graph/adjacency_list.hpp:255, from /build/reproducible-path/shasta-0.11.1/src/LocalAssemblyGraph.hpp:18, from /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:6: /usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’: /usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here 1521 | typename Config::edge_property_type p; | ^ In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge; _Args = {const boost::list_edge&}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge; _Args = {const boost::list_edge&}; _Tp = std::_List_node >]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:713:33, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:2005:32, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:1306:24, inlined from ‘std::pair boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:574:20, inlined from ‘std::pair boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:606:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20, inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:1668:57: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ /usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’: /usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here 1521 | typename Config::edge_property_type p; | ^ [ 21%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp [ 21%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-ReadGraph.cpp [ 22%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-Reads.cpp [ 22%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer.cpp In file included from /usr/include/c++/12/bits/char_traits.h:46, from /usr/include/c++/12/ios:40, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/reproducible-path/shasta-0.11.1/src/iostream.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/ReadId.hpp:11, from /build/reproducible-path/shasta-0.11.1/src/OrientedReadPair.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/Alignment.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/Assembler.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:2: In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge; _Args = {const boost::list_edge&}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge; _Args = {const boost::list_edge&}; _Tp = std::_List_node >]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:713:33, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:2005:32, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:1306:24, inlined from ‘std::pair boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:574:20, inlined from ‘std::pair boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:606:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20, inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:1623:53: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ In file included from /usr/include/boost/graph/adjacency_list.hpp:255, from /build/reproducible-path/shasta-0.11.1/src/LocalAssemblyGraph.hpp:18, from /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:6: /usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’: /usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here 1521 | typename Config::edge_property_type p; | ^ In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge; _Args = {const boost::list_edge&}]’, inlined from ‘static constexpr void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge; _Args = {const boost::list_edge&}; _Tp = std::_List_node >]’ at /usr/include/c++/12/bits/alloc_traits.h:518:21, inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:713:33, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge&}; _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:2005:32, inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_list.h:1306:24, inlined from ‘std::pair boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:574:20, inlined from ‘std::pair boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list, std::allocator > >; T = boost::list_edge&]’ at /usr/include/boost/pending/container_traits.hpp:606:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29, inlined from ‘std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property&) [with Config = detail::adj_list_gen, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20, inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblerAssemblyGraph.cpp:1668:57: /usr/include/c++/12/bits/stl_construct.h:97:73: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized] 97 | { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); } | ^ /usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’: /usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here 1521 | typename Config::edge_property_type p; | ^ [ 23%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerHttpServer-MarkerGraph.cpp [ 24%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerInducedAlignments.cpp [ 24%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerKmers.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerKmers.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerKmers.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerKmers.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerKmers.cpp [ 25%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerLowHash.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat 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staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/CompactUndirectedGraph.cpp [ 38%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMode3.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 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staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.cpp [ 39%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ConfigurationTable.cpp [ 39%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerOptions.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 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staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ConsensusCaller.cpp [ 40%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o -MF 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/build/reproducible-path/shasta-0.11.1/src/Histogram.cpp [ 41%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerReadGraph.cpp [ 42%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/HttpServer.cpp [ 42%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/InducedAlignment.cpp [ 42%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerReadGraph2.cpp [ 43%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalAlignmentCandidateGraph.cpp [ 43%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalAlignmentGraph.cpp [ 44%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblerReads.cpp [ 45%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalAssemblyGraph.cpp [ 45%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalMarkerGraph-Write.cpp [ 45%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph.cpp [ 46%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp [ 47%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalMarkerGraph.cpp [ 47%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblyPathGraph.cpp In file included from /usr/include/c++/12/ios:40, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/reproducible-path/shasta-0.11.1/src/iostream.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/Base.hpp:14, from /build/reproducible-path/shasta-0.11.1/src/LongBaseSequence.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph.hpp:19, from /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.hpp:11, from /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.cpp:2: In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::CompressedAssemblyGraphEdge::gfaId() const’ at /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.cpp:400:34: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ [ 48%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/AssemblyPathGraph2.cpp [ 48%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Base.cpp [ 48%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalReadGraph.cpp [ 49%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LongBaseSequence.cpp [ 49%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/CompactUndirectedGraph.cpp [ 50%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.cpp [ 50%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ConfigurationTable.cpp [ 50%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LowHash0.cpp [ 50%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash1.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash1.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash1.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash1.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LowHash1.cpp [ 51%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ConsensusCaller.cpp In file included from /usr/include/c++/12/ios:40, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/reproducible-path/shasta-0.11.1/src/iostream.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/Base.hpp:14, from /build/reproducible-path/shasta-0.11.1/src/ShortBaseSequence.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/Kmer.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/Marker.hpp:21, from /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:8, from /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:2: In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writePhasedDetails() const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1669:47: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writePhasedDetails() const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1694:47: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [18, 9223372036854775807] and 17 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ [ 51%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Coverage.cpp [ 52%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/MarkerFinder.cpp [ 53%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Histogram.cpp [ 53%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/HttpServer.cpp [ 53%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/MarkerGraph.cpp [ 54%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/MedianConsensusCaller.cpp [ 55%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/InducedAlignment.cpp [ 55%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/MemoryMappedAllocator.cpp [ 56%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/MemoryMappedVector.cpp [ 56%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalAlignmentCandidateGraph.cpp [ 57%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalAlignmentGraph.cpp [ 57%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/MultithreadedObject.cpp [ 57%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalAssemblyGraph.cpp [ 58%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/MurmurHash2.cpp [ 58%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PeakFinder.cpp [ 59%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph-Write.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/LocalMarkerGraph-Write.cpp In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writeDetailed(const std::string&, bool, bool, bool, bool, bool) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1044:32: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writeDetailed(const std::string&, bool, bool, bool, bool, bool) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1044:32: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ [ 60%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PhasingGraph.cpp [ 60%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PngImage.cpp In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writeDetailed(const std::string&, bool, bool, bool, bool, bool) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1044:32: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ [ 61%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PythonModule.cpp [ 61%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ReadGraph.cpp [ 62%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ReadLoader.cpp [ 62%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Reads.cpp [ 62%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ReferenceOverlapMap.cpp [ 63%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SHASTA_ASSERT.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SHASTA_ASSERT.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/SHASTA_ASSERT.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/SHASTA_ASSERT.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/SHASTA_ASSERT.cpp In file included from /usr/include/c++/12/ios:40, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/reproducible-path/shasta-0.11.1/src/iostream.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/Base.hpp:14, from /build/reproducible-path/shasta-0.11.1/src/ShortBaseSequence.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/Kmer.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/Marker.hpp:21, from /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:8, from /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:2: In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::Superbubble::writeGraphviz(std::ostream&, const shasta::AssemblyGraph2&) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:4103:41: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::Superbubble::writeGraphviz1(std::ostream&, const shasta::AssemblyGraph2&) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:4177:41: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ [ 63%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ShortBaseSequence.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ShortBaseSequence.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ShortBaseSequence.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ShortBaseSequence.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ShortBaseSequence.cpp In file included from /usr/include/c++/12/ios:40, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/reproducible-path/shasta-0.11.1/src/iostream.hpp:4, from /build/reproducible-path/shasta-0.11.1/src/Base.hpp:14, from /build/reproducible-path/shasta-0.11.1/src/LongBaseSequence.hpp:5, from /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph.hpp:19, from /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.hpp:11, from /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.cpp:2: In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::CompressedAssemblyGraphEdge::gfaId() const’ at /build/reproducible-path/shasta-0.11.1/src/CompressedAssemblyGraph.cpp:400:34: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ [ 64%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/SimpleBayesianConsensusCaller-Builtin.cpp [ 64%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/SimpleBayesianConsensusCaller.cpp In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writePhasedDetails() const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1669:47: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writePhasedDetails() const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1694:47: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [18, 9223372036854775807] and 17 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In static member function ‘static constexpr std::char_traits::char_type* std::char_traits::copy(char_type*, const char_type*, std::size_t)’, inlined from ‘static constexpr void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:423:21, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.tcc:532:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::replace(size_type, size_type, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:2171:19, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::insert(size_type, const _CharT*) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1928:22, inlined from ‘constexpr std::__cxx11::basic_string<_CharT, _Traits, _Allocator> std::operator+(const _CharT*, __cxx11::basic_string<_CharT, _Traits, _Allocator>&&) [with _CharT = char; _Traits = char_traits; _Alloc = allocator]’ at /usr/include/c++/12/bits/basic_string.h:3541:36, inlined from ‘std::string shasta::AssemblyGraph2Edge::pathId(uint64_t) const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.hpp:180:26, inlined from ‘void shasta::AssemblyGraph2::writePhasedDetails() const’ at /build/reproducible-path/shasta-0.11.1/src/AssemblyGraph2.cpp:1721:39: /usr/include/c++/12/bits/char_traits.h:431:56: warning: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ accessing 9223372036854775810 or more bytes at offsets [2, 9223372036854775807] and 1 may overlap up to 9223372036854775813 bytes at offset -3 [-Wrestrict] 431 | return static_cast(__builtin_memcpy(__s1, __s2, __n)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ [ 65%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleConsensusCaller.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/buildId.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/buildId.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/buildId.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/buildId.cpp [ 66%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/compressAlignment.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion 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staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/computeRunLengthRepresentation.cpp [ 67%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 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staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/diploidBayesianPhase.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/diploidBayesianPhase.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/diploidBayesianPhase.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/diploidBayesianPhase.cpp [ 68%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -I/build/reproducible-path/shasta-0.11.1/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o -MF 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dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PeakFinder.cpp [ 82%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PhasingGraph.cpp [ 83%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PngImage.cpp [ 83%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/PythonModule.cpp [ 84%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ReadGraph.cpp [ 84%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ReadLoader.cpp [ 84%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/Reads.cpp [ 85%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ReferenceOverlapMap.cpp [ 85%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/SHASTA_ASSERT.cpp [ 86%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/ShortBaseSequence.cpp In file included from /usr/include/c++/12/istream:39, from /usr/include/c++/12/sstream:38, from /usr/include/c++/12/complex:45, from /usr/include/boost/detail/container_fwd.hpp:98, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:761, from /usr/include/boost/functional/hash.hpp:6, from /usr/include/boost/unordered/unordered_set.hpp:18, from /usr/include/boost/unordered_set.hpp:17, from /usr/include/boost/graph/adjacency_list.hpp:20, from /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.hpp:29, from /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:1: In member function ‘std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(const void*) [with _CharT = char; _Traits = std::char_traits]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:806:51: /usr/include/c++/12/ostream:246:25: warning: pointer ‘v1’ may be used after ‘void operator delete(void*, std::size_t)’ [-Wuse-after-free] 246 | { return _M_insert(__p); } | ~~~~~~~~~^~~~~ In file included from /usr/include/boost/graph/adjacency_list.hpp:255: In function ‘void boost::remove_vertex(typename Config::vertex_descriptor, adj_list_impl&) [with Derived = adjacency_list; Config = detail::adj_list_gen, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config; Base = bidirectional_graph_helper_with_property, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config>]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:803:18: /usr/include/boost/graph/detail/adjacency_list.hpp:1966:5: note: call to ‘void operator delete(void*, std::size_t)’ here 1966 | delete su; | ^~~~~~~~~ In member function ‘std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(const void*) [with _CharT = char; _Traits = std::char_traits]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:806:64: /usr/include/c++/12/ostream:246:25: warning: pointer ‘v2’ may be used after ‘void operator delete(void*, std::size_t)’ [-Wuse-after-free] 246 | { return _M_insert(__p); } | ~~~~~~~~~^~~~~ In function ‘void boost::remove_vertex(typename Config::vertex_descriptor, adj_list_impl&) [with Derived = adjacency_list; Config = detail::adj_list_gen, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config; Base = bidirectional_graph_helper_with_property, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config>]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:804:18: /usr/include/boost/graph/detail/adjacency_list.hpp:1966:5: note: call to ‘void operator delete(void*, std::size_t)’ here 1966 | delete su; | ^~~~~~~~~ [ 86%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/SimpleBayesianConsensusCaller-Builtin.cpp [ 87%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/SimpleBayesianConsensusCaller.cpp [ 87%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/SimpleConsensusCaller.cpp [ 88%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/assembleMarkerGraphPath.cpp [ 88%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/buildId.cpp [ 89%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/compressAlignment.cpp [ 89%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 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-DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/shastaLapack.cpp [ 97%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/testSpoa.cpp [ 98%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/testSubsetGraph.cpp [ 98%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/timestamp.cpp [ 99%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -g0 -O3 -mcx16 -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/pybind11/include -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o -c /build/reproducible-path/shasta-0.11.1/src/touchMemory.cpp In file included from /usr/include/c++/12/istream:39, from /usr/include/c++/12/sstream:38, from /usr/include/c++/12/complex:45, from /usr/include/boost/detail/container_fwd.hpp:98, from /usr/include/boost/container_hash/extensions.hpp:22, from /usr/include/boost/container_hash/hash.hpp:761, from /usr/include/boost/functional/hash.hpp:6, from /usr/include/boost/unordered/unordered_set.hpp:18, from /usr/include/boost/unordered_set.hpp:17, from /usr/include/boost/graph/adjacency_list.hpp:20, from /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.hpp:29, from /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:1: In member function ‘std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(const void*) [with _CharT = char; _Traits = std::char_traits]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:806:51: /usr/include/c++/12/ostream:246:25: warning: pointer ‘v1’ may be used after ‘void operator delete(void*, std::size_t)’ [-Wuse-after-free] 246 | { return _M_insert(__p); } | ~~~~~~~~~^~~~~ In file included from /usr/include/boost/graph/adjacency_list.hpp:255: In function ‘void boost::remove_vertex(typename Config::vertex_descriptor, adj_list_impl&) [with Derived = adjacency_list; Config = detail::adj_list_gen, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config; Base = bidirectional_graph_helper_with_property, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config>]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:803:18: /usr/include/boost/graph/detail/adjacency_list.hpp:1966:5: note: call to ‘void operator delete(void*, std::size_t)’ here 1966 | delete su; | ^~~~~~~~~ In member function ‘std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(const void*) [with _CharT = char; _Traits = std::char_traits]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:806:64: /usr/include/c++/12/ostream:246:25: warning: pointer ‘v2’ may be used after ‘void operator delete(void*, std::size_t)’ [-Wuse-after-free] 246 | { return _M_insert(__p); } | ~~~~~~~~~^~~~~ In function ‘void boost::remove_vertex(typename Config::vertex_descriptor, adj_list_impl&) [with Derived = adjacency_list; Config = detail::adj_list_gen, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config; Base = bidirectional_graph_helper_with_property, listS, setS, bidirectionalS, shasta::mode3::ExpandedJaccardGraphVertex, no_property, no_property, listS>::config>]’, inlined from ‘void shasta::mode3::ExpandedJaccardGraph::merge(boost::adjacency_list::vertex_descriptor, boost::adjacency_list::vertex_descriptor, std::set >&, bool)’ at /build/reproducible-path/shasta-0.11.1/src/mode3-JaccardGraph.cpp:804:18: /usr/include/boost/graph/detail/adjacency_list.hpp:1966:5: note: call to ‘void operator delete(void*, std::size_t)’ here 1966 | delete su; | ^~~~~~~~~ [100%] Linking CXX static library shasta.a cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/cmake -P CMakeFiles/shastaStaticLibrary.dir/cmake_clean_target.cmake cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/shastaStaticLibrary.dir/link.txt --verbose=1 /usr/bin/ar qc shasta.a CMakeFiles/shastaStaticLibrary.dir/__/src/Align4.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o 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CMakeFiles/shastaStaticLibrary.dir/__/src/html.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/mappedCopy.cpp.o "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-AssemblyPath.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-Detangler.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-JaccardGraph.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-LocalAssemblyGraph.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PathGraph.cpp.o" CMakeFiles/shastaStaticLibrary.dir/__/src/mode3.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/performanceLog.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/platformDependent.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/runCommandWithTimeout.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/shastaLapack.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/testSpoa.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/testSubsetGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/timestamp.cpp.o 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CMakeFiles/shastaDynamicLibrary.dir/__/src/LongBaseSequence.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash0.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash1.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerFinder.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MedianConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedAllocator.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedVector.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MultithreadedObject.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MurmurHash2.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o "CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o" CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/diploidBayesianPhase.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/dset64Test.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/extractKmer.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/filesystem.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/html.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/mappedCopy.cpp.o "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-AssemblyPath.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-Detangler.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-JaccardGraph.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-LocalAssemblyGraph.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PathGraph.cpp.o" CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/performanceLog.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/platformDependent.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/runCommandWithTimeout.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o -latomic -lpng -lboost_program_options -lpthread -lz -lspoa -llapack -lblas -lpython3.11 -ldl -lm make[4]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' [100%] Built target shastaDynamicLibrary make -f dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build.make dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/depend make[4]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/shasta-0.11.1 /build/reproducible-path/shasta-0.11.1/dynamicExecutable /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicExecutable /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' make -f dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build.make dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build make[4]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' [100%] Building CXX object dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicExecutable && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.11.1 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.11.1/dynamicExecutable/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++20 -Wall -Wconversion -Wno-unused-result -g0 -O3 -mcx16 -MD -MT dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -MF CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o.d -o CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -c /build/reproducible-path/shasta-0.11.1/srcMain/main.cpp [100%] Linking CXX executable shastaDynamic cd /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicExecutable && /usr/bin/cmake -E cmake_link_script CMakeFiles/shastaDynamicExecutable.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.11.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -o shastaDynamic -Wl,-rpath,/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary: ../dynamicLibrary/shasta.so -latomic -lboost_system -lboost_program_options -lboost_chrono -lspoa -lpng -lz -llapack -lblas -lgfortran -lquadmath -lpthread -lpython3.11 -ldl -lm make[4]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' [100%] Built target shastaDynamicExecutable make[3]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' # Move shared library into sphinx documentation folder for doc generation find . -name "shasta.so" -exec cp {} docs/PythonApi/ \; cp: './docs/PythonApi/shasta.so' and 'docs/PythonApi/shasta.so' are the same file PYTHONPATH=docs/PythonApi/ python3 -m sphinx -N -bhtml docs/PythonApi/ build/html # HTML generator Running Sphinx v5.3.0 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). making output directory... done WARNING: html_static_path entry '_static' does not exist building [mo]: targets for 0 po files that are out of date building [html]: targets for 1 source files that are out of date updating environment: [new config] 1 added, 0 changed, 0 removed reading sources... [100%] index looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [100%] index generating indices... genindex py-modindex done writing additional pages... search done copying static files... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 2 warnings. The HTML pages are in build/html. make[1]: Leaving directory '/build/reproducible-path/shasta-0.11.1' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/reproducible-path/shasta-0.11.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/shasta-0.11.1 -B/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: 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/build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/Configurations.html -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/ComputationalMethods.html -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/Compatibility.html -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/Commands.html -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/CommandLineOptions.html -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/ChooseMemoryOptions.html -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/CZI-new-logo.png -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/BuildingFromSource.html -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/BubbleChainPath.png -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/BubbleChain.png -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/Bubble.png -- Installing: /build/reproducible-path/shasta-0.11.1/debian/tmp/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/./shasta-install/docs/Acknowledgments.html make[1]: Leaving directory '/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/build/reproducible-path/shasta-0.11.1' dh_install -a # Rename shastaDynamic to shasta for ease mv debian/shasta/usr/bin/shastaDynamic debian/shasta/usr/bin/shasta # The library is in a more unusual place (nested within /usr/lib), so modify # the ELF chrpath -r /usr/lib/python3/dist-packages \ debian/shasta/usr/bin/shasta debian/shasta/usr/bin/shasta: RUNPATH=/build/reproducible-path/shasta-0.11.1/obj-x86_64-linux-gnu/dynamicLibrary: debian/shasta/usr/bin/shasta: new RUNPATH: /usr/lib/python3/dist-packages patchelf \ --replace-needed shasta.so shasta.cpython-311-x86_64-linux-gnu.so \ debian/shasta/usr/bin/shasta make[1]: Leaving directory '/build/reproducible-path/shasta-0.11.1' dh_install -Nshasta -Npython3-shasta dh_installdocs dh_sphinxdoc dh_installchangelogs dh_installexamples dh_installman dh_python3 I: dh_python3 fs:483: renaming shasta.so to shasta.cpython-311-x86_64-linux-gnu.so debian/rules execute_after_dh_python3-arch make[1]: Entering directory '/build/reproducible-path/shasta-0.11.1' patchelf \ --set-soname shasta.cpython-311-x86_64-linux-gnu.so \ /build/reproducible-path/shasta-0.11.1/debian/python3-shasta/usr/lib/python3/dist-packages/shasta.cpython-311-x86_64-linux-gnu.so make[1]: Leaving directory '/build/reproducible-path/shasta-0.11.1' dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms debian/rules override_dh_missing make[1]: Entering directory '/build/reproducible-path/shasta-0.11.1' # No need to install docker files find debian/tmp -type d -name docker | xargs rm -rf # static library should not be installed find debian/tmp -name shasta.a -delete # dynamic library was installed manually before - so remove it from debian/tmp find debian/tmp -name shasta.so -delete # 11MB of generated docs should go into a separate package if this is considered sensible # FIXME: for the moment do not install these find debian/tmp -name docs | xargs rm -rf # Remove rest of files which have already been installed rm -rf debian/tmp//build/reproducible-path/shasta-0.11.1 dh_missing --list-missing make[1]: Leaving directory '/build/reproducible-path/shasta-0.11.1' dh_dwz -a dwz: debian/python3-shasta/usr/lib/python3/dist-packages/shasta.cpython-311-x86_64-linux-gnu.so: .debug_info section not present dwz: debian/shasta/usr/bin/shasta: .debug_info section not present dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'python3-shasta-doc' in '../python3-shasta-doc_0.11.1-1_all.deb'. dpkg-deb: building package 'python3-shasta' in '../python3-shasta_0.11.1-1_amd64.deb'. dpkg-deb: building package 'python3-shasta-dbgsym' in '../python3-shasta-dbgsym_0.11.1-1_amd64.deb'. dpkg-deb: building package 'shasta' in '../shasta_0.11.1-1_amd64.deb'. dpkg-deb: building package 'shasta-dbgsym' in '../shasta-dbgsym_0.11.1-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../shasta_0.11.1-1_amd64.buildinfo dpkg-genchanges --build=binary -O../shasta_0.11.1-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1783257 and its subdirectories I: Current time: Tue Feb 11 19:46:56 -12 2025 I: pbuilder-time-stamp: 1739346416 Thu Jan 11 01:23:40 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Thu Jan 11 01:23:40 UTC 2024 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Thu Jan 11 01:36:43 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Thu Jan 11 01:36:44 UTC 2024 I: shasta_0.11.1-1_amd64.changes: Format: 1.8 Date: Mon, 12 Dec 2022 09:50:09 +0100 Source: shasta Binary: python3-shasta python3-shasta-dbgsym python3-shasta-doc shasta shasta-dbgsym Architecture: amd64 all Version: 0.11.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: python3-shasta - nanopore whole genome assembly (dynamic library) python3-shasta-doc - nanopore whole genome assembly (documentation) shasta - nanopore whole genome assembly (binaries and scripts) Changes: shasta (0.11.1-1) unstable; urgency=medium . * Team upload * Upstream repository moved from github.com/chanzuckerberg/shasta to github.com/paoloshasta/shasta Checksums-Sha1: 2d9ff0292ef55b4242ccc52dd0e5cc99e9493637 112664 python3-shasta-dbgsym_0.11.1-1_amd64.deb d182e87696e8f550bcdb471a181bb0c21df5a1c5 24196 python3-shasta-doc_0.11.1-1_all.deb 0422a88bbef33dae58b2b294cc0919a5f000a014 2007784 python3-shasta_0.11.1-1_amd64.deb 035c88a8160859ea8452373124f6e4cb8a84fcb6 9396 shasta-dbgsym_0.11.1-1_amd64.deb 77670f1f724c3cfa7b5a7940301dc58f1cb59cfd 14976 shasta_0.11.1-1_amd64.buildinfo dac828d20916585f3383fb49aaaeeb2fbdd5af38 622184 shasta_0.11.1-1_amd64.deb Checksums-Sha256: 09e2bfe801506dbeb6b8a3a045df7adf4e5c02cc5129870bb82daeac3362751c 112664 python3-shasta-dbgsym_0.11.1-1_amd64.deb c77267f981c413614486c3fd3370af39ce3ce49ff094865c3db720bf87de7fa4 24196 python3-shasta-doc_0.11.1-1_all.deb 9ce28d78d3f65893d9fdf6858d25215e34e28186d50484ebee6a1f290d8c9495 2007784 python3-shasta_0.11.1-1_amd64.deb 97fb2170437c83425f824a77be2f8aacd0fcc841abf3fe2c9575745b66fc32f5 9396 shasta-dbgsym_0.11.1-1_amd64.deb 1041a9db1eab707a2bd70b2747cdf11adb33d960c7ccbed8d6706363448846c2 14976 shasta_0.11.1-1_amd64.buildinfo 6dc9f7cbf7bcb5a885058bb52708cee2871f3684278db3a14b8a0a10e2552770 622184 shasta_0.11.1-1_amd64.deb Files: 64054d3e78ce5927f50cd62e320d1d56 112664 debug optional python3-shasta-dbgsym_0.11.1-1_amd64.deb 2332035c026e859261847f8c8548920e 24196 doc optional python3-shasta-doc_0.11.1-1_all.deb 4a0cf46022c176d3d925a9ff392d8f75 2007784 python optional python3-shasta_0.11.1-1_amd64.deb 8e0088d185ea02e6830dbf5a2c0418a6 9396 debug optional shasta-dbgsym_0.11.1-1_amd64.deb 4c8b33988a523ee99917fb7b555f24fa 14976 science optional shasta_0.11.1-1_amd64.buildinfo 52f0c84f686a3bf9814378dbd3f711b7 622184 science optional shasta_0.11.1-1_amd64.deb Thu Jan 11 01:36:45 UTC 2024 I: diffoscope 240 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.3sTbz1Mp/shasta_0.11.1-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.3sTbz1Mp/shasta_0.11.1-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.3sTbz1Mp/shasta_0.11.1-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.3sTbz1Mp/b1/shasta_0.11.1-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.3sTbz1Mp/b2/shasta_0.11.1-1_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.282s) 0.282s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.039s) 0.039s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Thu Jan 11 01:36:45 UTC 2024 I: diffoscope 240 found no differences in the changes files, and a .buildinfo file also exists. Thu Jan 11 01:36:45 UTC 2024 I: shasta from bookworm built successfully and reproducibly on amd64. Thu Jan 11 01:36:48 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Jan 11 01:36:48 UTC 2024 I: Submitting 16K b1/shasta_0.11.1-1_amd64.buildinfo.asc Thu Jan 11 01:36:48 UTC 2024 I: Submitting 16K b2/shasta_0.11.1-1_amd64.buildinfo.asc Thu Jan 11 01:36:49 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Jan 11 01:36:49 UTC 2024 I: Done submitting .buildinfo files. Thu Jan 11 01:36:49 UTC 2024 I: Removing signed shasta_0.11.1-1_amd64.buildinfo.asc files: removed './b1/shasta_0.11.1-1_amd64.buildinfo.asc' removed './b2/shasta_0.11.1-1_amd64.buildinfo.asc'