I: pbuilder: network access will be disabled during build I: Current time: Wed Sep 3 13:58:26 +14 2025 I: pbuilder-time-stamp: 1756857506 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-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 [spades_4.0.0+really3.15.5+dfsg-1.dsc] I: copying [./spades_4.0.0+really3.15.5+dfsg.orig.tar.xz] I: copying [./spades_4.0.0+really3.15.5+dfsg-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./spades_4.0.0+really3.15.5+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting spades in spades-4.0.0+really3.15.5+dfsg dpkg-source: info: unpacking spades_4.0.0+really3.15.5+dfsg.orig.tar.xz dpkg-source: info: unpacking spades_4.0.0+really3.15.5+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix-gcc13.patch dpkg-source: info: applying 0002_use_debian_packaged_python-joblib.patch dpkg-source: info: applying 0003_accept-system-bwa.patch dpkg-source: info: applying 0101_cmake_ignore_removed_python-yaml.patch dpkg-source: info: applying 0102_cmake_ignore_removed_python-joblib.patch dpkg-source: info: applying 0103_use-debian-packaged-bwa.patch dpkg-source: info: applying 0114_use_debian_provided_libs.patch dpkg-source: info: applying 0118_adjust_spades_home_again.patch dpkg-source: info: applying fix-bool-cast dpkg-source: info: applying python3.patch dpkg-source: info: applying yaml_load.patch dpkg-source: info: applying debuginfo.patch dpkg-source: info: applying debian_bwa_zlib.patch dpkg-source: info: applying workdir_for_test.patch dpkg-source: info: applying disable_local_convertutf.patch dpkg-source: info: applying fix-sigill-on-non-popcnt-cpus.patch dpkg-source: info: applying fix-privacy-breaches.patch dpkg-source: info: applying typos.patch dpkg-source: info: applying python3.12.patch dpkg-source: info: applying raw_regex_pattern.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1790708/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Sep 3 00:05 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/1790708/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/1790708/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' DIRSTACK=() DISTRIBUTION=forky EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=902d96df58494137ba81bd34b719dc3e LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=1790708 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qMKgHYLc/pbuilderrc_qc7K --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qMKgHYLc/b2 --logfile b2/build.log spades_4.0.0+really3.15.5+dfsg-1.dsc' SUDO_GID=110 SUDO_HOME=/var/lib/jenkins SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1790708/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-sequence-python3, clang-format, clang-tidy, clang-tools, cmake, python3-all, zlib1g-dev, libbz2-dev, libbam-dev, libbamtools-dev, libc++-dev, libhts-dev, libnlopt-dev, libnlopt-cxx-dev, libssw-dev, libzstd-dev, llvm-dev, python3-yaml, python3-joblib, asciidoctor, bwa, libbwa-dev, lynx dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19897 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-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on clang-format; however: Package clang-format is not installed. pbuilder-satisfydepends-dummy depends on clang-tidy; however: Package clang-tidy is not installed. pbuilder-satisfydepends-dummy depends on clang-tools; however: Package clang-tools is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libbam-dev; however: Package libbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libbamtools-dev; however: Package libbamtools-dev is not installed. pbuilder-satisfydepends-dummy depends on libc++-dev; however: Package libc++-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libnlopt-dev; however: Package libnlopt-dev is not installed. pbuilder-satisfydepends-dummy depends on libnlopt-cxx-dev; however: Package libnlopt-cxx-dev is not installed. pbuilder-satisfydepends-dummy depends on libssw-dev; however: Package libssw-dev is not installed. pbuilder-satisfydepends-dummy depends on libzstd-dev; however: Package libzstd-dev is not installed. pbuilder-satisfydepends-dummy depends on llvm-dev; however: Package llvm-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-yaml; however: Package python3-yaml is not installed. pbuilder-satisfydepends-dummy depends on python3-joblib; however: Package python3-joblib is not installed. pbuilder-satisfydepends-dummy depends on asciidoctor; however: Package asciidoctor is not installed. pbuilder-satisfydepends-dummy depends on bwa; however: Package bwa is not installed. pbuilder-satisfydepends-dummy depends on libbwa-dev; however: Package libbwa-dev is not installed. pbuilder-satisfydepends-dummy depends on lynx; however: Package lynx is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: asciidoctor{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} bwa{a} ca-certificates{a} clang-19{a} clang-format{a} clang-format-19{a} clang-tidy{a} clang-tidy-19{a} clang-tools{a} clang-tools-19{a} cmake{a} cmake-data{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libarchive13t64{a} libbam-dev{a} libbamtools-dev{a} libbamtools2.5.2{a} libbrotli-dev{a} libbrotli1{a} libbwa-dev{a} libbz2-dev{a} libc++-19-dev{a} libc++-dev{a} libc++1-19{a} libc++abi-19-dev{a} libc++abi1-19{a} libclang-common-19-dev{a} libclang-cpp19{a} libclang1-19{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libedit2{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libffi-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgc1{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libidn2-0{a} libidn2-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-dev{a} libldap2{a} libllvm19{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libnlopt-cxx-dev{a} libnlopt-cxx0{a} libnlopt-dev{a} libnlopt0{a} libobjc-14-dev{a} libobjc4{a} libp11-kit-dev{a} libp11-kit0{a} libpfm4{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librhash1{a} librtmp-dev{a} librtmp1{a} libruby{a} libruby3.3{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libssw-dev{a} libssw0{a} libtasn1-6{a} libtasn1-6-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libunwind-19{a} libunwind-19-dev{a} libuv1t64{a} libxml2-16{a} libxml2-dev{a} libyaml-0-2{a} libz3-4{a} libz3-dev{a} libzstd-dev{a} llvm{a} llvm-19{a} llvm-19-dev{a} llvm-19-linker-tools{a} llvm-19-runtime{a} llvm-19-tools{a} llvm-dev{a} llvm-runtime{a} lynx{a} lynx-common{a} m4{a} man-db{a} media-types{a} netbase{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-joblib{a} python3-minimal{a} python3-pygments{a} python3-yaml{a} python3.13{a} python3.13-minimal{a} rake{a} readline-common{a} ruby{a} ruby-asciidoctor{a} ruby-csv{a} ruby-did-you-mean{a} ruby-net-telnet{a} ruby-ruby2-keywords{a} ruby-rubygems{a} ruby-webrick{a} ruby-xmlrpc{a} ruby3.3{a} rubygems-integration{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: binfmt-support bzip2-doc fonts-lato krb5-locales libarchive-cpio-perl libclang-rt-19-dev libgpm2 libjs-jquery libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc linux-sysctl-defaults mailcap psmisc publicsuffix python3-numpy python3-psutil python3-pytest ruby-sdbm systemd zip 0 packages upgraded, 188 newly installed, 0 to remove and 0 not upgraded. Need to get 201 MB of archives. After unpacking 1056 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.1-2 [108 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.7-1 [864 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.7-1 [2216 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.5-1 [27.2 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 media-types all 13.0.0 [29.3 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.4.8-2 [24.1 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-2 [74.8 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-2 [180 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.7-1 [1960 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.7-1 [761 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.5-1 [10.2 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.5-1 [28.2 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 openssl amd64 3.5.2-1 [1493 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 ca-certificates all 20250419 [162 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.1-1 [94.7 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 rubygems-integration all 1.19 [5488 B] Get: 30 http://deb.debian.org/debian forky/main amd64 rake all 13.2.1-1 [65.2 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 ruby-csv all 3.3.4-1 [42.2 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 ruby-did-you-mean all 1.6.3-2 [20.9 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 ruby-net-telnet all 0.2.0-1 [13.1 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 ruby-ruby2-keywords all 0.0.5-1 [4300 B] Get: 35 http://deb.debian.org/debian forky/main amd64 ruby-webrick all 1.9.1-1 [59.6 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 ruby-xmlrpc all 0.3.3-2 [24.4 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 libyaml-0-2 amd64 0.2.5-2 [52.5 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libruby3.3 amd64 3.3.8-2 [6301 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 ruby3.3 amd64 3.3.8-2 [834 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 libruby amd64 1:3.3+b1 [5440 B] Get: 41 http://deb.debian.org/debian forky/main amd64 ruby-rubygems all 3.6.7-2 [407 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 ruby amd64 1:3.3+b1 [6560 B] Get: 43 http://deb.debian.org/debian forky/main amd64 ruby-asciidoctor all 2.0.23-1 [214 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 asciidoctor all 2.0.23-1 [88.7 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 automake all 1:1.17-4 [862 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 bwa amd64 0.7.19-1 [213 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libllvm19 amd64 1:19.1.7-3+b2 [26.0 MB] Get: 55 http://deb.debian.org/debian forky/main amd64 libclang-cpp19 amd64 1:19.1.7-3+b2 [13.2 MB] Get: 56 http://deb.debian.org/debian forky/main amd64 libgc1 amd64 1:8.2.8-1 [247 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libobjc4 amd64 15.2.0-1 [42.8 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libobjc-14-dev amd64 14.3.0-5 [172 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 libclang-common-19-dev amd64 1:19.1.7-3+b2 [740 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 llvm-19-linker-tools amd64 1:19.1.7-3+b2 [1263 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libclang1-19 amd64 1:19.1.7-3+b2 [7620 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 clang-19 amd64 1:19.1.7-3+b2 [117 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 clang-format-19 amd64 1:19.1.7-3+b2 [93.0 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 clang-format amd64 1:19.0-63 [6352 B] Get: 65 http://deb.debian.org/debian forky/main amd64 clang-tools-19 amd64 1:19.1.7-3+b2 [8954 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 python3-yaml amd64 6.0.2-2 [137 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 clang-tidy-19 amd64 1:19.1.7-3+b2 [1884 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 clang-tidy amd64 1:19.0-63 [6116 B] Get: 69 http://deb.debian.org/debian forky/main amd64 clang-tools amd64 1:19.0-63 [6164 B] Get: 70 http://deb.debian.org/debian forky/main amd64 cmake-data all 3.31.6-2 [2268 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libarchive13t64 amd64 3.7.4-4+b1 [349 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 77 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.9-3 [1465 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 92 http://deb.debian.org/debian forky/main amd64 libcurl4t64 amd64 8.15.0-1 [392 kB] Get: 93 http://deb.debian.org/debian forky/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 94 http://deb.debian.org/debian forky/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 95 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get: 96 http://deb.debian.org/debian forky/main amd64 cmake amd64 3.31.6-2 [12.0 MB] Get: 97 http://deb.debian.org/debian forky/main amd64 comerr-dev amd64 2.1-1.47.2-3+b3 [56.7 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 99 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-4 [539 kB] Get: 100 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 101 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 102 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.14.2-1 [19.8 kB] Get: 103 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.14.2-1 [8768 B] Get: 104 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 105 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 106 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 107 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 108 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 109 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 110 http://deb.debian.org/debian forky/main amd64 dh-python all 6.20250414 [116 kB] Get: 111 http://deb.debian.org/debian forky/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB] Get: 112 http://deb.debian.org/debian forky/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB] Get: 113 http://deb.debian.org/debian forky/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB] Get: 114 http://deb.debian.org/debian forky/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB] Get: 115 http://deb.debian.org/debian forky/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB] Get: 116 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 117 http://deb.debian.org/debian forky/main amd64 libbam-dev amd64 0.1.19+dfsg-6 [118 kB] Get: 118 http://deb.debian.org/debian forky/main amd64 libbamtools2.5.2 amd64 2.5.2+dfsg-6+b1 [161 kB] Get: 119 http://deb.debian.org/debian forky/main amd64 libbamtools-dev amd64 2.5.2+dfsg-6+b1 [222 kB] Get: 120 http://deb.debian.org/debian forky/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get: 121 http://deb.debian.org/debian forky/main amd64 libbwa-dev amd64 0.7.19-1 [157 kB] Get: 122 http://deb.debian.org/debian forky/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 123 http://deb.debian.org/debian forky/main amd64 libunwind-19 amd64 1:19.1.7-3+b2 [63.2 kB] Get: 124 http://deb.debian.org/debian forky/main amd64 libc++abi1-19 amd64 1:19.1.7-3+b2 [106 kB] Get: 125 http://deb.debian.org/debian forky/main amd64 libc++1-19 amd64 1:19.1.7-3+b2 [303 kB] Get: 126 http://deb.debian.org/debian forky/main amd64 libc++abi-19-dev amd64 1:19.1.7-3+b2 [128 kB] Get: 127 http://deb.debian.org/debian forky/main amd64 libunwind-19-dev amd64 1:19.1.7-3+b2 [81.7 kB] Get: 128 http://deb.debian.org/debian forky/main amd64 libc++-19-dev amd64 1:19.1.7-3+b2 [1286 kB] Get: 129 http://deb.debian.org/debian forky/main amd64 libc++-dev amd64 1:19.0-63 [6056 B] Get: 130 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB] Get: 131 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB] Get: 132 http://deb.debian.org/debian forky/main amd64 libcurl3t64-gnutls amd64 8.15.0-1 [385 kB] Get: 133 http://deb.debian.org/debian forky/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 134 http://deb.debian.org/debian forky/main amd64 libunbound8 amd64 1.23.1-1 [606 kB] Get: 135 http://deb.debian.org/debian forky/main amd64 libgnutls-dane0t64 amd64 3.8.9-3 [455 kB] Get: 136 http://deb.debian.org/debian forky/main amd64 libgnutls-openssl27t64 amd64 3.8.9-3 [455 kB] Get: 137 http://deb.debian.org/debian forky/main amd64 libidn2-dev amd64 2.3.8-4 [103 kB] Get: 138 http://deb.debian.org/debian forky/main amd64 libp11-kit-dev amd64 0.25.5-3 [208 kB] Get: 139 http://deb.debian.org/debian forky/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get: 140 http://deb.debian.org/debian forky/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-4 [329 kB] Get: 141 http://deb.debian.org/debian forky/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-4 [642 kB] Get: 142 http://deb.debian.org/debian forky/main amd64 nettle-dev amd64 3.10.1-1 [1318 kB] Get: 143 http://deb.debian.org/debian forky/main amd64 libgnutls28-dev amd64 3.8.9-3 [1406 kB] Get: 144 http://deb.debian.org/debian forky/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB] Get: 145 http://deb.debian.org/debian forky/main amd64 libldap-dev amd64 2.6.10+dfsg-1 [312 kB] Get: 146 http://deb.debian.org/debian forky/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 147 http://deb.debian.org/debian forky/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 148 http://deb.debian.org/debian forky/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 149 http://deb.debian.org/debian forky/main amd64 libnghttp2-dev amd64 1.64.0-1.1+b1 [117 kB] Get: 150 http://deb.debian.org/debian forky/main amd64 libnghttp3-dev amd64 1.8.0-1 [91.3 kB] Get: 151 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-gnutls-dev amd64 1.11.0-1 [34.0 kB] Get: 152 http://deb.debian.org/debian forky/main amd64 libngtcp2-dev amd64 1.11.0-1 [179 kB] Get: 153 http://deb.debian.org/debian forky/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 154 http://deb.debian.org/debian forky/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [67.9 kB] Get: 155 http://deb.debian.org/debian forky/main amd64 libssl-dev amd64 3.5.2-1 [2957 kB] Get: 156 http://deb.debian.org/debian forky/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 157 http://deb.debian.org/debian forky/main amd64 libzstd-dev amd64 1.5.7+dfsg-1 [371 kB] Get: 158 http://deb.debian.org/debian forky/main amd64 libcurl4-gnutls-dev amd64 8.15.0-1 [504 kB] Get: 159 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get: 160 http://deb.debian.org/debian forky/main amd64 libdeflate-dev amd64 1.23-2 [55.9 kB] Get: 161 http://deb.debian.org/debian forky/main amd64 libffi-dev amd64 3.4.8-2 [61.1 kB] Get: 162 http://deb.debian.org/debian forky/main amd64 libhtscodecs2 amd64 1.6.1-2 [95.8 kB] Get: 163 http://deb.debian.org/debian forky/main amd64 libhts3t64 amd64 1.21+ds-1 [463 kB] Get: 164 http://deb.debian.org/debian forky/main amd64 liblzma-dev amd64 5.8.1-1 [348 kB] Get: 165 http://deb.debian.org/debian forky/main amd64 libhts-dev amd64 1.21+ds-1 [1733 kB] Get: 166 http://deb.debian.org/debian forky/main amd64 libncurses6 amd64 6.5+20250216-2 [105 kB] Get: 167 http://deb.debian.org/debian forky/main amd64 libncurses-dev amd64 6.5+20250216-2 [353 kB] Get: 168 http://deb.debian.org/debian forky/main amd64 libnlopt0 amd64 2.7.1-6+b4 [178 kB] Get: 169 http://deb.debian.org/debian forky/main amd64 libnlopt-dev amd64 2.7.1-6+b4 [46.8 kB] Get: 170 http://deb.debian.org/debian forky/main amd64 libnlopt-cxx0 amd64 2.7.1-6+b4 [205 kB] Get: 171 http://deb.debian.org/debian forky/main amd64 libnlopt-cxx-dev amd64 2.7.1-6+b4 [13.5 kB] Get: 172 http://deb.debian.org/debian forky/main amd64 libpfm4 amd64 4.13.0+git106-g3e4031b-1 [372 kB] Get: 173 http://deb.debian.org/debian forky/main amd64 libssw0 amd64 1.1-15+b2 [21.8 kB] Get: 174 http://deb.debian.org/debian forky/main amd64 libssw-dev amd64 1.1-15+b2 [24.6 kB] Get: 175 http://deb.debian.org/debian forky/main amd64 libxml2-dev amd64 2.14.5+dfsg-0.2 [744 kB] Get: 176 http://deb.debian.org/debian forky/main amd64 libz3-dev amd64 4.13.3-1 [107 kB] Get: 177 http://deb.debian.org/debian forky/main amd64 llvm-19-runtime amd64 1:19.1.7-3+b2 [551 kB] Get: 178 http://deb.debian.org/debian forky/main amd64 llvm-runtime amd64 1:19.0-63 [5904 B] Get: 179 http://deb.debian.org/debian forky/main amd64 llvm-19 amd64 1:19.1.7-3+b2 [16.4 MB] Get: 180 http://deb.debian.org/debian forky/main amd64 llvm amd64 1:19.0-63 [8328 B] Get: 181 http://deb.debian.org/debian forky/main amd64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 182 http://deb.debian.org/debian forky/main amd64 llvm-19-tools amd64 1:19.1.7-3+b2 [511 kB] Get: 183 http://deb.debian.org/debian forky/main amd64 llvm-19-dev amd64 1:19.1.7-3+b2 [43.1 MB] Get: 184 http://deb.debian.org/debian forky/main amd64 llvm-dev amd64 1:19.0-63 [6152 B] Get: 185 http://deb.debian.org/debian forky/main amd64 lynx-common all 2.9.2-1 [1193 kB] Get: 186 http://deb.debian.org/debian forky/main amd64 lynx amd64 2.9.2-1 [641 kB] Get: 187 http://deb.debian.org/debian forky/main amd64 python3-all amd64 3.13.5-1 [1048 B] Get: 188 http://deb.debian.org/debian forky/main amd64 python3-joblib all 1.4.2-5 [216 kB] Fetched 201 MB in 13s (15.7 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1: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 ... 19897 files and directories currently installed.) Preparing to unpack .../libexpat1_2.7.1-2_amd64.deb ... Unpacking libexpat1:amd64 (2.7.1-2) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.7-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.7-1_amd64.deb ... Unpacking python3.13-minimal (3.13.7-1) ... Setting up libpython3.13-minimal:amd64 (3.13.7-1) ... Setting up libexpat1:amd64 (2.7.1-2) ... Setting up python3.13-minimal (3.13.7-1) ... 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 ... 20231 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.5-1_amd64.deb ... Unpacking python3-minimal (3.13.5-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../4-libffi8_3.4.8-2_amd64.deb ... Unpacking libffi8:amd64 (3.4.8-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-2_all.deb ... Unpacking readline-common (8.3-2) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../6-libreadline8t64_8.3-2_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.3-2) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_amd64.deb ... Unpacking python3.13 (3.13.7-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.13.5-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.5-1) ... Setting up python3-minimal (3.13.5-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21246 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.5-1_amd64.deb ... Unpacking python3 (3.13.5-1) ... Selecting previously unselected package libproc2-0:amd64. 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Setting up libnlopt-cxx-dev:amd64 (2.7.1-6+b4) ... Setting up libxml2-dev:amd64 (2.14.5+dfsg-0.2) ... Setting up libldap-dev:amd64 (2.6.10+dfsg-1) ... Setting up libbamtools-dev:amd64 (2.5.2+dfsg-6+b1) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libbam-dev (0.1.19+dfsg-6) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libidn2-dev:amd64 (2.3.8-4) ... Setting up libreadline8t64:amd64 (8.3-2) ... Setting up dh-strip-nondeterminism (1.14.2-1) ... Setting up groff-base (1.23.0-9) ... Setting up llvm-19-linker-tools (1:19.1.7-3+b2) ... Setting up llvm-19-runtime (1:19.1.7-3+b2) ... Setting up libc++-dev:amd64 (1:19.0-63) ... Setting up libpython3.13-stdlib:amd64 (3.13.7-1) ... Setting up libp11-kit-dev:amd64 (0.25.5-3) ... Setting up libpython3-stdlib:amd64 (3.13.5-1) ... Setting up libclang-cpp19 (1:19.1.7-3+b2) ... Setting up libgnutls30t64:amd64 (3.8.9-3) ... Setting up libgnutls-openssl27t64:amd64 (3.8.9-3) ... Setting up libnghttp2-dev:amd64 (1.64.0-1.1+b1) ... Setting up python3.13 (3.13.7-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up python3 (3.13.5-1) ... Setting up rubygems-integration (1.19) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up clang-19 (1:19.1.7-3+b2) ... Setting up clang-tools-19 (1:19.1.7-3+b2) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up python3-pygments (2.18.0+dfsg-2) ... Setting up libgnutls-dane0t64:amd64 (3.8.9-3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libgssrpc4t64:amd64 (1.21.3-5) ... Setting up llvm-runtime:amd64 (1:19.0-63) ... Setting up lynx (2.9.2-1) ... update-alternatives: using /usr/bin/lynx to provide /usr/bin/www-browser (www-browser) in auto mode Setting up clang-tools:amd64 (1:19.0-63) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-5) ... Setting up dh-python (6.20250414) ... Setting up libgnutls28-dev:amd64 (3.8.9-3) ... Setting up libcurl4t64:amd64 (8.15.0-1) ... Setting up libkdb5-10t64:amd64 (1.21.3-5) ... Setting up python3-joblib (1.4.2-5) ... Setting up clang-format-19 (1:19.1.7-3+b2) ... Setting up libcurl3t64-gnutls:amd64 (8.15.0-1) ... Setting up python3-all (3.13.5-1) ... Setting up python3-yaml (6.0.2-2) ... Setting up debhelper (13.26) ... Setting up libngtcp2-crypto-gnutls-dev:amd64 (1.11.0-1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-5) ... Setting up cmake (3.31.6-2) ... Setting up libhts3t64:amd64 (1.21+ds-1) ... Setting up llvm-19 (1:19.1.7-3+b2) ... Setting up llvm-19-tools (1:19.1.7-3+b2) ... Setting up krb5-multidev:amd64 (1.21.3-5) ... Setting up clang-format:amd64 (1:19.0-63) ... Setting up clang-tidy-19 (1:19.1.7-3+b2) ... Setting up libkrb5-dev:amd64 (1.21.3-5) ... Setting up llvm (1:19.0-63) ... Setting up llvm-19-dev (1:19.1.7-3+b2) ... Setting up llvm-dev (1:19.0-63) ... Setting up clang-tidy (1:19.0-63) ... Setting up libcurl4-gnutls-dev:amd64 (8.15.0-1) ... Setting up libhts-dev:amd64 (1.21+ds-1) ... Setting up rake (13.2.1-1) ... Setting up libruby3.3:amd64 (3.3.8-2) ... Setting up ruby-rubygems (3.6.7-2) ... Setting up ruby3.3 (3.3.8-2) ... Setting up libruby:amd64 (1:3.3+b1) ... Setting up ruby (1:3.3+b1) ... Setting up ruby-asciidoctor (2.0.23-1) ... Setting up asciidoctor (2.0.23-1) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for ca-certificates (20250419) ... 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: user script /srv/workspace/pbuilder/1790708/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for forky I: user script /srv/workspace/pbuilder/1790708/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../spades_4.0.0+really3.15.5+dfsg-1_source.changes dpkg-buildpackage: info: source package spades dpkg-buildpackage: info: source version 4.0.0+really3.15.5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=assembler/src --buildsystem=cmake debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_auto_clean find . -name "*.pyc" -delete rm -rf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/man_src/*.html /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/man_src/*.? rm -rf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/man make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_autoreconf_clean -O--sourcedirectory=assembler/src -O--buildsystem=cmake debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_clean -X.orig make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' debian/rules binary dh binary --sourcedirectory=assembler/src --buildsystem=cmake dh_update_autotools_config -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_autoreconf -O--sourcedirectory=assembler/src -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_auto_configure -- -DBoost_NO_BOOST_CMAKE=TRUE cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBoost_NO_BOOST_CMAKE=TRUE ../assembler/src CMake Warning (dev) in CMakeLists.txt: No project() command is present. The top-level CMakeLists.txt file must contain a literal, direct call to the project() command. Add a line of code such as project(ProjectName) near the top of the file, but after cmake_minimum_required(). CMake is pretending there is a "project(Project)" command on the first line. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) in CMakeLists.txt: cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. -- The C compiler identification is GNU 14.3.0 -- The CXX compiler identification is GNU 14.3.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Looking for wsyncup in /usr/lib/x86_64-linux-gnu/libncurses.so -- Looking for wsyncup in /usr/lib/x86_64-linux-gnu/libncurses.so - found -- Looking for wsyncup in /usr/lib/x86_64-linux-gnu/libcurses.so -- Looking for wsyncup in /usr/lib/x86_64-linux-gnu/libcurses.so - found CMake Warning (dev) at cmake/deps.cmake:30 (find_package): Policy CMP0144 is not set: find_package uses upper-case _ROOT variables. Run "cmake --help-policy CMP0144" for policy details. Use the cmake_policy command to set the policy and suppress this warning. CMake variable BOOST_ROOT is set to: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include For compatibility, find_package is ignoring the variable, but code in a .cmake module might still use it. Call Stack (most recent call first): CMakeLists.txt:55 (include) This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at cmake/deps.cmake:30 (find_package): Policy CMP0167 is not set: The FindBoost module is removed. Run "cmake --help-policy CMP0167" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): CMakeLists.txt:55 (include) This warning is for project developers. Use -Wno-dev to suppress it. -- Found Boost: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include (found version "1.63.0") Making Release Configuration... Building SPAdes from N/A, sha: N/A CMake Deprecation Warning at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Override standard malloc (MI_OVERRIDE=ON) -- Enable abort() calls on memory allocation failure (MI_XMALLOC=ON) -- Enable printing of error and warning messages by default (MI_SHOW_ERRORS=ON) -- Use the C++ compiler to compile (MI_USE_CXX=ON) -- -- Library base name: mimalloc-none -- Build type : none -- Compiler : /usr/bin/c++ -- Install directory: /usr/lib/mimalloc-1.6 -- Build targets : object -- -- Looking for open -- Looking for open - found -- Looking for execinfo.h -- Looking for execinfo.h - found -- Looking for signal.h -- Looking for signal.h - found -- Looking for sys/stat.h -- Looking for sys/stat.h - found -- Looking for cxxabi.h -- Looking for cxxabi.h - not found -- Looking for dlfcn.h -- Looking for dlfcn.h - found -- Looking for mach/mach.h -- Looking for mach/mach.h - not found -- Looking for link.h -- Looking for link.h - found -- Looking for unistd.h -- Looking for unistd.h - found -- Looking for sys/mman.h -- Looking for sys/mman.h - found -- Looking for fcntl.h -- Looking for fcntl.h - found -- Looking for malloc/malloc.h -- Looking for malloc/malloc.h - not found -- Looking for pthread.h -- Looking for pthread.h - found -- Looking for sys/time.h -- Looking for sys/time.h - found -- Looking for sys/resource.h -- Looking for sys/resource.h - found -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include -- Looking for futimens -- Looking for futimens - found -- Looking for futimes -- Looking for futimes - found -- Looking for getrusage -- Looking for getrusage - found -- Looking for getpagesize -- Looking for getpagesize - found -- Looking for sysconf -- Looking for sysconf - found -- Looking for mallinfo -- Looking for mallinfo - found -- Looking for mallctl -- Looking for mallctl - not found -- Looking for malloc_zone_statistics -- Looking for malloc_zone_statistics - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Looking for pthread_getspecific in pthread -- Looking for pthread_getspecific in pthread - found -- Looking for pthread_rwlock_init in pthread -- Looking for pthread_rwlock_init in pthread - found -- Looking for pthread_mutex_lock in pthread -- Looking for pthread_mutex_lock in pthread - found -- Looking for dlopen in dl -- Looking for dlopen in dl - found -- Looking for clock_gettime in rt -- Looking for clock_gettime in rt - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Performing Test HAVE_FFI_CALL -- Performing Test HAVE_FFI_CALL - Success -- Found FFI: /usr/lib/x86_64-linux-gnu/libffi.so -- Could NOT find LibEdit (missing: LibEdit_INCLUDE_DIRS LibEdit_LIBRARIES) -- Found zstd: /usr/lib/x86_64-linux-gnu/libzstd.so -- Found LibXml2: /usr/lib/x86_64-linux-gnu/libxml2.so (found version "2.14.5") -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.15.0") -- Looking for include file endian.h -- Looking for include file endian.h - found -- Looking for include file inttypes.h -- Looking for include file inttypes.h - found -- Looking for include file stdint.h -- Looking for include file stdint.h - found -- Looking for include file strings.h -- Looking for include file strings.h - found -- Looking for include file sys/types.h -- Looking for include file sys/types.h - found -- Looking for include file sys/param.h -- Looking for include file sys/param.h - found -- Looking for include file sys/sysctl.h -- Looking for include file sys/sysctl.h - not found -- Looking for include file emmintrin.h -- Looking for include file emmintrin.h - found -- Looking for include file pmmintrin.h -- Looking for include file pmmintrin.h - found -- Looking for include file xmmintrin.h -- Looking for include file xmmintrin.h - found -- Looking for chmod -- Looking for chmod - found -- Looking for fseeko -- Looking for fseeko - found -- Looking for fstat -- Looking for fstat - found -- Looking for getcwd -- Looking for getcwd - found -- Looking for getpid -- Looking for getpid - found -- Looking for mkstemp -- Looking for mkstemp - found -- Looking for popen -- Looking for popen - found -- Looking for putenv -- Looking for putenv - found -- Looking for stat -- Looking for stat - found -- Looking for strcasecmp -- Looking for strcasecmp - found -- Looking for sysctl -- Looking for sysctl - not found -- Looking for times -- Looking for times - found -- Looking for erfc -- Looking for erfc - not found CMake Deprecation Warning at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/CMakeLists.txt:4 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. CMake Deprecation Warning at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/CMakeLists.txt:56 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. CMake Warning (dev) at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/cmake/internal_utils.cmake:247 (find_package): Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules are removed. Run "cmake --help-policy CMP0148" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Call Stack (most recent call first): /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/CMakeLists.txt:91 (include) This warning is for project developers. Use -Wno-dev to suppress it. -- Found PythonInterp: /usr/bin/python3 (found version "3.13.7") CMake Deprecation Warning at projects/mts/CMakeLists.txt:8 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Configuring done (15.0s) -- Generating done (0.9s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_auto_build -- all debruijn_test include_test cd obj-x86_64-linux-gnu && make -j40 "INSTALL=install --strip-program=true" all debruijn_test include_test VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -B/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/build.make ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/depend make -f ext/bamtools/api/CMakeFiles/BamTools.dir/build.make ext/bamtools/api/CMakeFiles/BamTools.dir/depend make -f ext/cppformat/CMakeFiles/format.dir/build.make ext/cppformat/CMakeFiles/format.dir/depend make -f ext/getopt_pp/CMakeFiles/getopt_pp.dir/build.make ext/getopt_pp/CMakeFiles/getopt_pp.dir/depend make -f ext/llvm/CMakeFiles/llvm-support.dir/build.make ext/llvm/CMakeFiles/llvm-support.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/DependInfo.cmake "--color=" make -f ext/gqf/CMakeFiles/gqf.dir/build.make ext/gqf/CMakeFiles/gqf.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/cppformat /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat/CMakeFiles/format.dir/DependInfo.cmake "--color=" make -f ext/edlib/CMakeFiles/edlib.dir/build.make ext/edlib/CMakeFiles/edlib.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/getopt_pp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/getopt_pp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/getopt_pp/CMakeFiles/getopt_pp.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/DependInfo.cmake "--color=" make -f ext/gfa1/CMakeFiles/gfa1.dir/build.make ext/gfa1/CMakeFiles/gfa1.dir/depend make -f ext/easel/CMakeFiles/easel.dir/build.make ext/easel/CMakeFiles/easel.dir/depend make -f ext/googletest/googletest/CMakeFiles/gtest.dir/build.make ext/googletest/googletest/CMakeFiles/gtest.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf/CMakeFiles/gqf.dir/DependInfo.cmake "--color=" make -f common/modules/coverage_model/CMakeFiles/coverage_model.dir/build.make common/modules/coverage_model/CMakeFiles/coverage_model.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/edlib /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib/CMakeFiles/edlib.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/mimalloc/CMakeFiles/mimalloc-obj.dir/build.make ext/mimalloc/CMakeFiles/mimalloc-obj.dir/depend cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gfa1 /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gfa1 /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gfa1/CMakeFiles/gfa1.dir/DependInfo.cmake "--color=" make -f common/io/binary/CMakeFiles/binary_io.dir/build.make common/io/binary/CMakeFiles/binary_io.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest/CMakeFiles/gtest.dir/DependInfo.cmake "--color=" make -f common/utils/CMakeFiles/version.dir/build.make common/utils/CMakeFiles/version.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/coverage_model /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model/CMakeFiles/coverage_model.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/CMakeFiles/easel.dir/DependInfo.cmake "--color=" make -f common/paired_info/CMakeFiles/paired_info.dir/build.make common/paired_info/CMakeFiles/paired_info.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/mimalloc 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Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/version.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src 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'/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/getopt_pp/CMakeFiles/getopt_pp.dir/build.make ext/getopt_pp/CMakeFiles/getopt_pp.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/cppformat/CMakeFiles/format.dir/build.make ext/cppformat/CMakeFiles/format.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/gqf/CMakeFiles/gqf.dir/build.make ext/gqf/CMakeFiles/gqf.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/edlib/CMakeFiles/edlib.dir/build.make ext/edlib/CMakeFiles/edlib.dir/build make -f ext/gfa1/CMakeFiles/gfa1.dir/build.make ext/gfa1/CMakeFiles/gfa1.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/easel/CMakeFiles/easel.dir/build.make ext/easel/CMakeFiles/easel.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/googletest/googletest/CMakeFiles/gtest.dir/build.make ext/googletest/googletest/CMakeFiles/gtest.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/coverage_model/CMakeFiles/coverage_model.dir/build.make common/modules/coverage_model/CMakeFiles/coverage_model.dir/build make -f ext/mimalloc/CMakeFiles/mimalloc-obj.dir/build.make ext/mimalloc/CMakeFiles/mimalloc-obj.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/io/binary/CMakeFiles/binary_io.dir/build.make common/io/binary/CMakeFiles/binary_io.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/utils/CMakeFiles/version.dir/build.make common/utils/CMakeFiles/version.dir/build make -f common/paired_info/CMakeFiles/paired_info.dir/build.make common/paired_info/CMakeFiles/paired_info.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/spaligner/CMakeFiles/mapping_printer.dir/build.make projects/spaligner/CMakeFiles/mapping_printer.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 0%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/AffineAlignment.cpp.o [ 0%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Mutation.cpp.o [ 1%] Building CXX object ext/edlib/CMakeFiles/edlib.dir/edlib.cpp.o [ 1%] Building C object ext/gqf/CMakeFiles/gqf.dir/gqf.c.o [ 2%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Sequence.cpp.o [ 2%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/APInt.cpp.o [ 2%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o [ 2%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o [ 2%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Coverage.cpp.o [ 2%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamReader.cpp.o [ 2%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/APFloat.cpp.o [ 2%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o [ 2%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o [ 2%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Version.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Mutation.cpp.o -MF CMakeFiles/ConsensusCore.dir/Mutation.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Mutation.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Mutation.cpp [ 2%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Atomic.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/AffineAlignment.cpp.o -MF CMakeFiles/ConsensusCore.dir/AffineAlignment.cpp.o.d -o CMakeFiles/ConsensusCore.dir/AffineAlignment.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/AffineAlignment.cpp [ 3%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o [ 3%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o [ 3%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o [ 3%] Building C object ext/gfa1/CMakeFiles/gfa1.dir/gfa.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Sequence.cpp.o -MF CMakeFiles/ConsensusCore.dir/Sequence.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Sequence.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Sequence.cpp [ 3%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Errno.cpp.o [ 3%] Building CXX object common/modules/coverage_model/CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o [ 3%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o [ 3%] Building CXX object ext/cppformat/CMakeFiles/format.dir/posix.cc.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/BamReader.cpp [ 3%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Debug.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/APFloat.cpp.o -MF CMakeFiles/llvm-support.dir/APFloat.cpp.o.d -o CMakeFiles/llvm-support.dir/APFloat.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/APFloat.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/edlib/CMakeFiles/edlib.dir/edlib.cpp.o -MF CMakeFiles/edlib.dir/edlib.cpp.o.d -o CMakeFiles/edlib.dir/edlib.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/edlib/edlib.cpp [ 3%] Building CXX object ext/cppformat/CMakeFiles/format.dir/format.cc.o [ 2%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Utils.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Coverage.cpp.o -MF CMakeFiles/ConsensusCore.dir/Coverage.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Coverage.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Coverage.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o -MF CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o.d -o CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/PairwiseAlignment.cpp [ 3%] Building C object ext/easel/CMakeFiles/easel.dir/easel.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Atomic.cpp.o -MF CMakeFiles/llvm-support.dir/Atomic.cpp.o.d -o CMakeFiles/llvm-support.dir/Atomic.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Atomic.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include 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CMakeFiles/ConsensusCore.dir/Version.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Version.cpp [ 3%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o [ 4%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o [ 4%] Building CXX object ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o [ 4%] Building CXX object ext/googletest/googletest/CMakeFiles/gtest.dir/src/gtest-all.cc.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o -MF CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Matrix/DenseMatrix.cpp [ 5%] Building C object ext/easel/CMakeFiles/easel.dir/esl_alphabet.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gfa1 && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/gfa1/CMakeFiles/gfa1.dir/gfa.c.o -MF CMakeFiles/gfa1.dir/gfa.c.o.d -o CMakeFiles/gfa1.dir/gfa.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gfa1/gfa.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Errno.cpp.o -MF CMakeFiles/llvm-support.dir/Errno.cpp.o.d -o CMakeFiles/llvm-support.dir/Errno.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Errno.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat && /usr/bin/c++ -DFMT_USE_FILE_DESCRIPTORS=1 -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/cppformat -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wall -Wextra -pedantic -Wno-deprecated -O2 -MD -MT ext/cppformat/CMakeFiles/format.dir/posix.cc.o -MF CMakeFiles/format.dir/posix.cc.o.d -o CMakeFiles/format.dir/posix.cc.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/cppformat/posix.cc cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/coverage_model/CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o -MF CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o.d -o CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/coverage_model/kmer_coverage_model.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Utils.cpp.o -MF CMakeFiles/ConsensusCore.dir/Utils.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Utils.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Utils.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Debug.cpp.o -MF CMakeFiles/llvm-support.dir/Debug.cpp.o.d -o CMakeFiles/llvm-support.dir/Debug.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Debug.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o -MF CMakeFiles/BamTools.dir/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/BamMultiReader.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o -MF CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Matrix/SparseMatrix.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o -MF CMakeFiles/BamTools.dir/BamWriter.cpp.o.d -o CMakeFiles/BamTools.dir/BamWriter.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/BamWriter.cpp [ 5%] Building CXX object ext/getopt_pp/CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/easel.c.o -MF CMakeFiles/easel.dir/easel.c.o.d -o CMakeFiles/easel.dir/easel.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/easel.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o -MF CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o.d -o CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/CrashRecoveryContext.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o -MF CMakeFiles/BamTools.dir/SamHeader.cpp.o.d -o CMakeFiles/BamTools.dir/SamHeader.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/SamHeader.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat && /usr/bin/c++ -DFMT_USE_FILE_DESCRIPTORS=1 -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/cppformat -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wall -Wextra -pedantic -Wno-deprecated -O2 -MD -MT ext/cppformat/CMakeFiles/format.dir/format.cc.o -MF CMakeFiles/format.dir/format.cc.o.d -o CMakeFiles/format.dir/format.cc.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/cppformat/format.cc cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/mimalloc && /usr/bin/c++ -DMI_MALLOC_OVERRIDE -DMI_MALLOC_OVERRIDE_GLIBC -DMI_SHOW_ERRORS=1 -DMI_XMALLOC=1 -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++17 -fPIC -Wno-deprecated -O2 -Wall -Wextra -Wno-unknown-pragmas -fvisibility=hidden -Wno-invalid-memory-model -ftls-model=initial-exec -MD -MT ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o -MF CMakeFiles/mimalloc-obj.dir/src/static.c.o.d -o CMakeFiles/mimalloc-obj.dir/src/static.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_alphabet.c.o -MF CMakeFiles/easel.dir/esl_alphabet.c.o.d -o CMakeFiles/easel.dir/esl_alphabet.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_alphabet.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=c++14 -Wall -Wshadow -Werror -Wno-error=dangling-else -DGTEST_HAS_PTHREAD=1 -fexceptions -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wno-deprecated -O2 -MD -MT ext/googletest/googletest/CMakeFiles/gtest.dir/src/gtest-all.cc.o -MF CMakeFiles/gtest.dir/src/gtest-all.cc.o.d -o CMakeFiles/gtest.dir/src/gtest-all.cc.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/src/gtest-all.cc cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/getopt_pp && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/getopt_pp/CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o -MF CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o.d -o CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/getopt_pp/getopt_pp.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgramChain.cpp.o -MF CMakeFiles/BamTools.dir/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/SamProgramChain.cpp [ 5%] Building CXX object common/utils/CMakeFiles/version.dir/version.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroup.cpp.o -MF CMakeFiles/BamTools.dir/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/SamReadGroup.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/utils/CMakeFiles/version.dir/version.cpp.o -MF CMakeFiles/version.dir/version.cpp.o.d -o CMakeFiles/version.dir/version.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/version.cpp [ 5%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Error.cpp.o [ 5%] Building CXX object common/io/binary/CMakeFiles/binary_io.dir/graph_pack.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Error.cpp.o -MF CMakeFiles/llvm-support.dir/Error.cpp.o.d -o CMakeFiles/llvm-support.dir/Error.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Error.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/binary && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/binary/CMakeFiles/binary_io.dir/graph_pack.cpp.o -MF CMakeFiles/binary_io.dir/graph_pack.cpp.o.d -o CMakeFiles/binary_io.dir/graph_pack.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp [ 6%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o [ 6%] Building CXX object common/paired_info/CMakeFiles/paired_info.dir/distance_estimation.cpp.o [ 6%] Building CXX object projects/spaligner/CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/paired_info/CMakeFiles/paired_info.dir/distance_estimation.cpp.o -MF CMakeFiles/paired_info.dir/distance_estimation.cpp.o.d -o CMakeFiles/paired_info.dir/distance_estimation.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp [ 6%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o -MF CMakeFiles/BamTools.dir/SamProgram.cpp.o.d -o CMakeFiles/BamTools.dir/SamProgram.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/SamProgram.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spaligner/CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o -MF CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o.d -o CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/mapping_printer.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o -MF CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o.d -o CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/ErrorHandling.cpp [ 8%] Linking CXX static library libversion.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/cmake -P CMakeFiles/version.dir/cmake_clean_target.cmake /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c: In function 'qf_dump_block': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:610:30: warning: format '%llx' expects argument of type 'long long unsigned int', but argument 2 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 610 | printf("%02llx ", j); | ~~~~~^ ~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %02lx /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c: In function 'qf_dump': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:641:20: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 641 | printf("%llu %llu %llu\n", | ~~~^ | | | long long unsigned int | %lu 642 | qf->metadata->nblocks, | ~~~~~~~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:641:25: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 3 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 641 | printf("%llu %llu %llu\n", | ~~~^ | | | long long unsigned int | %lu 642 | qf->metadata->nblocks, 643 | qf->metadata->ndistinct_elts, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:641:30: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 4 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=] 641 | printf("%llu %llu %llu\n", | ~~~^ | | | long long unsigned int | %lu ...... 644 | qf->metadata->nelts); | ~~~~~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c: In function 'qf_deserialize': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:1606:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1606 | fread(qf->metadata, sizeof(qfmetadata), 1, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf/gqf.c:1615:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1615 | fread(qf->blocks, qf->metadata->size, 1, fin); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/version.dir/link.txt --verbose=1 [ 8%] Building CXX object common/io/binary/CMakeFiles/binary_io.dir/genomic_info.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/binary && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/binary/CMakeFiles/binary_io.dir/genomic_info.cpp.o -MF CMakeFiles/binary_io.dir/genomic_info.cpp.o.d -o CMakeFiles/binary_io.dir/genomic_info.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/genomic_info.cpp /usr/bin/ar qc libversion.a CMakeFiles/version.dir/version.cpp.o /usr/bin/ranlib libversion.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 8%] Built target version [ 9%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/FoldingSet.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/FoldingSet.cpp.o -MF CMakeFiles/llvm-support.dir/FoldingSet.cpp.o.d -o CMakeFiles/llvm-support.dir/FoldingSet.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/FoldingSet.cpp [ 9%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/SamReadGroupDictionary.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:28: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/region.c: In function 'void _mi_mem_collect(mi_os_tld_t*)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/region.c:466:15: warning: 'void* memset(void*, int, size_t)' clearing an object of type 'mem_region_t' {aka 'struct mem_region_s'} with no trivial copy-assignment; use value-initialization instead [-Wclass-memaccess] 466 | memset(®ions[i], 0, sizeof(mem_region_t)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/region.c:89:16: note: 'mem_region_t' {aka 'struct mem_region_s'} declared here 89 | typedef struct mem_region_s { | ^~~~~~~~~~~~ [ 9%] Building C object ext/easel/CMakeFiles/easel.dir/esl_avx.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_avx.c.o -MF CMakeFiles/easel.dir/esl_avx.c.o.d -o CMakeFiles/easel.dir/esl_avx.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_avx.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/heap.c: In function 'mi_heap_t* mi_heap_new()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/heap.c:196:9: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'mi_heap_t' {aka 'struct mi_heap_s'} with no trivial copy-assignment [-Wclass-memaccess] 196 | memcpy(heap, &_mi_heap_empty, sizeof(mi_heap_t)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include/mimalloc-internal.h:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:17: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include/mimalloc-types.h:340:8: note: 'mi_heap_t' {aka 'struct mi_heap_s'} declared here 340 | struct mi_heap_s { | ^~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc.c:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:32: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c: At global scope: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:71:42: note: in expansion of macro 'MI_FORWARD1' 71 | void* malloc(size_t size) MI_FORWARD1(mi_malloc, size); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:72:42: note: in expansion of macro 'MI_FORWARD2' 72 | void* calloc(size_t size, size_t n) MI_FORWARD2(mi_calloc, size, n); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:73:42: note: in expansion of macro 'MI_FORWARD2' 73 | void* realloc(void* p, size_t newsize) MI_FORWARD2(mi_realloc, p, newsize); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:95:55: note: in expansion of macro 'MI_FORWARD1' 95 | void* operator new(std::size_t n) noexcept(false) MI_FORWARD1(mi_new,n); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:96:55: note: in expansion of macro 'MI_FORWARD1' 96 | void* operator new[](std::size_t n) noexcept(false) MI_FORWARD1(mi_new,n); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:167:42: note: in expansion of macro 'MI_FORWARD2' 167 | void* reallocf(void* p, size_t newsize) MI_FORWARD2(mi_reallocf,p,newsize); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:168:42: note: in expansion of macro 'MI_FORWARD1' 168 | size_t malloc_size(const void* p) MI_FORWARD1(mi_usable_size,p); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:170:42: note: in expansion of macro 'MI_FORWARD1' 170 | size_t malloc_usable_size(void *p) MI_FORWARD1(mi_usable_size,p); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:29:35: note: in expansion of macro 'MI_FORWARD' 29 | #define MI_FORWARD1(fun,x) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:194:53: note: in expansion of macro 'MI_FORWARD1' 194 | void* __libc_malloc(size_t size) MI_FORWARD1(mi_malloc,size); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:195:53: note: in expansion of macro 'MI_FORWARD2' 195 | void* __libc_calloc(size_t count, size_t size) MI_FORWARD2(mi_calloc,count,size); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:25:101: warning: 'nodiscard' attribute directive ignored [-Wattributes] 25 | #define MI_FORWARD(fun) __attribute__((alias(#fun), used, visibility("default"), copy(fun))) | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:30:35: note: in expansion of macro 'MI_FORWARD' 30 | #define MI_FORWARD2(fun,x,y) MI_FORWARD(fun) | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/alloc-override.c:196:53: note: in expansion of macro 'MI_FORWARD2' 196 | void* __libc_realloc(void* p, size_t size) MI_FORWARD2(mi_realloc,p,size); | ^~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/static.c:38: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/init.c: In function 'bool _mi_heap_init()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/src/init.c:192:11: warning: 'void* memcpy(void*, const void*, size_t)' writing to an object of type 'mi_heap_t' {aka 'struct mi_heap_s'} with no trivial copy-assignment [-Wclass-memaccess] 192 | memcpy(heap, &_mi_heap_empty, sizeof(*heap)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include/mimalloc-types.h:340:8: note: 'mi_heap_t' {aka 'struct mi_heap_s'} declared here 340 | struct mi_heap_s { | ^~~~~~~~~ [ 9%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o -MF CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o.d -o CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/FormatVariadic.cpp [ 9%] Building CXX object common/paired_info/CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/paired_info/CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o -MF CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o.d -o CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.cpp [ 9%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Hashing.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Hashing.cpp.o -MF CMakeFiles/llvm-support.dir/Hashing.cpp.o.d -o CMakeFiles/llvm-support.dir/Hashing.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Hashing.cpp [ 9%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Host.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Host.cpp.o -MF CMakeFiles/llvm-support.dir/Host.cpp.o.d -o CMakeFiles/llvm-support.dir/Host.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Host.cpp [ 9%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/JSON.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/JSON.cpp.o -MF CMakeFiles/llvm-support.dir/JSON.cpp.o.d -o CMakeFiles/llvm-support.dir/JSON.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/JSON.cpp [ 9%] Building C object ext/easel/CMakeFiles/easel.dir/esl_buffer.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_buffer.c.o -MF CMakeFiles/easel.dir/esl_buffer.c.o.d -o CMakeFiles/easel.dir/esl_buffer.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_buffer.c [ 10%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/LEB128.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/LEB128.cpp.o -MF CMakeFiles/llvm-support.dir/LEB128.cpp.o.d -o CMakeFiles/llvm-support.dir/LEB128.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/LEB128.cpp [ 10%] Building CXX object common/paired_info/CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/paired_info/CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o -MF CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o.d -o CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.cpp [ 11%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o -MF CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Poa/PoaConfig.cpp [ 11%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o -MF CMakeFiles/BamTools.dir/SamSequence.cpp.o.d -o CMakeFiles/BamTools.dir/SamSequence.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/SamSequence.cpp [ 11%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o -MF CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Poa/PoaConsensus.cpp [ 12%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/SamSequenceDictionary.cpp [ 12%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamHeader_p.cpp [ 12%] Building C object ext/easel/CMakeFiles/easel.dir/esl_cluster.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_cluster.c.o -MF CMakeFiles/easel.dir/esl_cluster.c.o.d -o CMakeFiles/easel.dir/esl_cluster.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_cluster.c [ 12%] Linking C static library libgqf.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf && /usr/bin/cmake -P CMakeFiles/gqf.dir/cmake_clean_target.cmake [ 12%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamMultiReader_p.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf && /usr/bin/cmake -E cmake_link_script CMakeFiles/gqf.dir/link.txt --verbose=1 [ 12%] Building C object ext/easel/CMakeFiles/easel.dir/esl_composition.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_composition.c.o -MF CMakeFiles/easel.dir/esl_composition.c.o.d -o CMakeFiles/easel.dir/esl_composition.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_composition.c [ 13%] Building CXX object ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o [ 13%] Building C object ext/easel/CMakeFiles/easel.dir/esl_dirichlet.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include/ConsensusCore -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/ConsensusCore/CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o -MF CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o.d -o CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/ConsensusCore/Poa/PoaGraph.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_dirichlet.c.o -MF CMakeFiles/easel.dir/esl_dirichlet.c.o.d -o CMakeFiles/easel.dir/esl_dirichlet.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_dirichlet.c /usr/bin/ar qc libgqf.a CMakeFiles/gqf.dir/gqf.c.o /usr/bin/ranlib libgqf.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 13%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamRandomAccessController_p.cpp [ 13%] Built target gqf [ 13%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 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ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamReader_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamReader_p.cpp [ 13%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/LineIterator.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/LineIterator.cpp.o -MF CMakeFiles/llvm-support.dir/LineIterator.cpp.o.d -o CMakeFiles/llvm-support.dir/LineIterator.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/LineIterator.cpp [ 13%] Building C object ext/easel/CMakeFiles/easel.dir/esl_distance.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_distance.c.o -MF CMakeFiles/easel.dir/esl_distance.c.o.d -o CMakeFiles/easel.dir/esl_distance.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_distance.c [ 13%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Locale.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Locale.cpp.o -MF CMakeFiles/llvm-support.dir/Locale.cpp.o.d -o CMakeFiles/llvm-support.dir/Locale.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Locale.cpp [ 15%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/bam/BamWriter_p.cpp [ 15%] Building C object ext/easel/CMakeFiles/easel.dir/esl_dmatrix.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_dmatrix.c.o -MF CMakeFiles/easel.dir/esl_dmatrix.c.o.d -o CMakeFiles/easel.dir/esl_dmatrix.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_dmatrix.c [ 15%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/MD5.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/MD5.cpp.o -MF CMakeFiles/llvm-support.dir/MD5.cpp.o.d -o CMakeFiles/llvm-support.dir/MD5.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/MD5.cpp [ 15%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/index/BamIndexFactory_p.cpp [ 15%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/index/BamStandardIndex_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/index/BamStandardIndex_p.cpp [ 15%] Building C object ext/easel/CMakeFiles/easel.dir/esl_dsqdata.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_dsqdata.c.o -MF CMakeFiles/easel.dir/esl_dsqdata.c.o.d -o CMakeFiles/easel.dir/esl_dsqdata.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_dsqdata.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 15%] Building C object ext/easel/CMakeFiles/easel.dir/esl_exponential.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_exponential.c.o -MF CMakeFiles/easel.dir/esl_exponential.c.o.d -o CMakeFiles/easel.dir/esl_exponential.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_exponential.c [ 16%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/MemAlloc.cpp.o [ 16%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/MemAlloc.cpp.o -MF CMakeFiles/llvm-support.dir/MemAlloc.cpp.o.d -o CMakeFiles/llvm-support.dir/MemAlloc.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/MemAlloc.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o -MF CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o.d -o CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/ManagedStatic.cpp [ 16%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/index/BamToolsIndex_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/index/BamToolsIndex_p.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/mapping_printer.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/mapping_printer.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 17%] Building C object ext/easel/CMakeFiles/easel.dir/esl_fileparser.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_fileparser.c.o -MF CMakeFiles/easel.dir/esl_fileparser.c.o.d -o CMakeFiles/easel.dir/esl_fileparser.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c [ 17%] Linking CXX static library libgetopt_pp.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/getopt_pp && /usr/bin/cmake -P CMakeFiles/getopt_pp.dir/cmake_clean_target.cmake [ 17%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gamma.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gamma.c.o -MF CMakeFiles/easel.dir/esl_gamma.c.o.d -o CMakeFiles/easel.dir/esl_gamma.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_gamma.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c: In function 'esl_fileparser_NextLine': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:278:21: warning: comparison between pointer and zero character constant [-Wpointer-compare] 278 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:278:14: note: did you mean to dereference the pointer? 278 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c: In function 'esl_fileparser_NextLinePeeked': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:359:17: warning: comparison between pointer and zero character constant [-Wpointer-compare] 359 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_fileparser.c:359:10: note: did you mean to dereference the pointer? 359 | while (efp->s != '\0' && isspace(*(efp->s))) efp->s++; | ^ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/getopt_pp && /usr/bin/cmake -E cmake_link_script CMakeFiles/getopt_pp.dir/link.txt --verbose=1 [ 17%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/BamDeviceFactory_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/BamDeviceFactory_p.cpp [ 18%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/BamFile_p.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 18%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/BgzfStream_p.cpp [ 18%] Linking C static library libgfa1.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gfa1 && /usr/bin/cmake -P CMakeFiles/gfa1.dir/cmake_clean_target.cmake /usr/bin/ar qc libgetopt_pp.a CMakeFiles/getopt_pp.dir/getopt_pp.cpp.o /usr/bin/ranlib libgetopt_pp.a [ 18%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/ByteArray_p.cpp [ 19%] Linking CXX static library libedlib.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib && /usr/bin/cmake -P CMakeFiles/edlib.dir/cmake_clean_target.cmake [ 19%] Built target getopt_pp [ 19%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gencode.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gencode.c.o -MF CMakeFiles/easel.dir/esl_gencode.c.o.d -o CMakeFiles/easel.dir/esl_gencode.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_gencode.c [ 19%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o -MF CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o.d -o CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/MemoryBuffer.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib && /usr/bin/cmake -E cmake_link_script CMakeFiles/edlib.dir/link.txt --verbose=1 cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gfa1 && /usr/bin/cmake -E cmake_link_script CMakeFiles/gfa1.dir/link.txt --verbose=1 [ 19%] Building C object ext/easel/CMakeFiles/easel.dir/esl_getopts.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_getopts.c.o -MF CMakeFiles/easel.dir/esl_getopts.c.o.d -o CMakeFiles/easel.dir/esl_getopts.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_getopts.c [ 19%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o -MF CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o.d -o CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/NativeFormatting.cpp [ 19%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/ILocalIODevice_p.cpp [ 19%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Path.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Path.cpp.o -MF CMakeFiles/llvm-support.dir/Path.cpp.o.d -o CMakeFiles/llvm-support.dir/Path.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Path.cpp [ 19%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Process.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Process.cpp.o -MF CMakeFiles/llvm-support.dir/Process.cpp.o.d -o CMakeFiles/llvm-support.dir/Process.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Process.cpp /usr/bin/ar qc libgfa1.a CMakeFiles/gfa1.dir/gfa.c.o /usr/bin/ranlib libgfa1.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/ar qc libedlib.a CMakeFiles/edlib.dir/edlib.cpp.o /usr/bin/ranlib libedlib.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 19%] Built target gfa1 [ 19%] Built target edlib [ 20%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Program.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Program.cpp.o -MF CMakeFiles/llvm-support.dir/Program.cpp.o.d -o CMakeFiles/llvm-support.dir/Program.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Program.cpp [ 20%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Regex.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Regex.cpp.o -MF CMakeFiles/llvm-support.dir/Regex.cpp.o.d -o CMakeFiles/llvm-support.dir/Regex.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Regex.cpp [ 20%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gev.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gev.c.o -MF CMakeFiles/easel.dir/esl_gev.c.o.d -o CMakeFiles/easel.dir/esl_gev.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_gev.c [ 20%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Signals.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Signals.cpp.o -MF CMakeFiles/llvm-support.dir/Signals.cpp.o.d -o CMakeFiles/llvm-support.dir/Signals.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Signals.cpp [ 22%] Building C object ext/easel/CMakeFiles/easel.dir/esl_gumbel.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_gumbel.c.o -MF CMakeFiles/easel.dir/esl_gumbel.c.o.d -o CMakeFiles/easel.dir/esl_gumbel.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_gumbel.c [ 22%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ParallelBgzfStream_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ParallelBgzfStream_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/ParallelBgzfStream_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/ParallelBgzfStream_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/ParallelBgzfStream_p.cpp [ 22%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/SmallVector.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/SmallVector.cpp.o -MF CMakeFiles/llvm-support.dir/SmallVector.cpp.o.d -o CMakeFiles/llvm-support.dir/SmallVector.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/SmallVector.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In member function 'virtual bool io::binary::FullPackIO::BinRead(std::istream&, Type&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:363:10: warning: unused variable 'loaded' [-Wunused-variable] 363 | bool loaded = base::BinRead(is, gp); | ^~~~~~ make -f common/io/graph/CMakeFiles/graphio.dir/build.make common/io/graph/CMakeFiles/graphio.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/graph/CMakeFiles/graphio.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/io/graph/CMakeFiles/graphio.dir/build.make common/io/graph/CMakeFiles/graphio.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 23%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o make -f common/sequence/CMakeFiles/sequence.dir/build.make common/sequence/CMakeFiles/sequence.dir/depend /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/coverage_model/kmer_coverage_model.cpp: In member function 'void coverage_model::KMerCoverageModel::Fit()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/coverage_model/kmer_coverage_model.cpp:325:23: warning: conversion from 'size_t' {aka 'long unsigned int'} to '__gnu_cxx::__alloc_traits, double>::value_type' {aka 'double'} may change value [-Wconversion] 325 | if (converged_ && Valley_ > x[2] && x[2] > 2) { | ^~~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/RollingBuffer_p.cpp make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/weighted_distance_estimation.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/smoothing_distance_estimation.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/sequence /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/sequence/CMakeFiles/sequence.dir/DependInfo.cmake "--color=" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/coverage_model/kmer_coverage_model.cpp:359:28: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 359 | ErrorThreshold_ = (Valley_ < mean_coverage_ ? | ^~~~~~~ [ 23%] Building CXX object common/io/graph/CMakeFiles/graphio.dir/gfa_reader.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/graph/CMakeFiles/graphio.dir/gfa_reader.cpp.o -MF CMakeFiles/graphio.dir/gfa_reader.cpp.o.d -o CMakeFiles/graphio.dir/gfa_reader.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_reader.cpp make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/sequence/CMakeFiles/sequence.dir/build.make common/sequence/CMakeFiles/sequence.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 23%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/SourceMgr.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/SourceMgr.cpp.o -MF CMakeFiles/llvm-support.dir/SourceMgr.cpp.o.d -o CMakeFiles/llvm-support.dir/SourceMgr.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/SourceMgr.cpp [ 24%] Building CXX object common/sequence/CMakeFiles/sequence.dir/sequence_tools.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/sequence && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/sequence/CMakeFiles/sequence.dir/sequence_tools.cpp.o -MF CMakeFiles/sequence.dir/sequence_tools.cpp.o.d -o CMakeFiles/sequence.dir/sequence_tools.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/sequence_tools.cpp [ 24%] Building CXX object common/io/graph/CMakeFiles/graphio.dir/gfa_writer.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/graph/CMakeFiles/graphio.dir/gfa_writer.cpp.o -MF CMakeFiles/graphio.dir/gfa_writer.cpp.o.d -o CMakeFiles/graphio.dir/gfa_writer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_writer.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:207:19: required from here 207 | graph_io_.Load(basename, g); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = omnigraph::EdgesPositionHandler]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:210:45: required from here 210 | loader.Load>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] 101 | bool loaded = io.Load(basename, component); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = debruijn_graph::EdgeIndex]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:213:34: required from here 213 | loader.Load>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] 101 | bool loaded = io.Load(basename, component); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = debruijn_graph::KmerMapper]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:216:35: required from here 216 | loader.Load>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] 101 | bool loaded = io.Load(basename, component); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::Loader::Load() [with T = omnigraph::FlankingCoverage]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:219:41: required from here 219 | loader.Load>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:101:14: warning: unused variable 'loaded' [-Wunused-variable] 101 | bool loaded = io.Load(basename, component); | ^~~~~~ [ 24%] Building CXX object common/io/graph/CMakeFiles/graphio.dir/fastg_writer.cpp.o /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:253:22: required from here 253 | graph_io_.BinRead(is, gp.get_mutable()); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = omnigraph::EdgesPositionHandler]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:256:45: required from here 256 | reader.Read>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] 130 | auto loaded = io.BinRead(is, component); | ^~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/graph/CMakeFiles/graphio.dir/fastg_writer.cpp.o -MF CMakeFiles/graphio.dir/fastg_writer.cpp.o.d -o CMakeFiles/graphio.dir/fastg_writer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/fastg_writer.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = debruijn_graph::EdgeIndex]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:259:34: required from here 259 | reader.Read>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] 130 | auto loaded = io.BinRead(is, component); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = debruijn_graph::KmerMapper]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:262:35: required from here 262 | reader.Read>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] 130 | auto loaded = io.BinRead(is, component); | ^~~~~~ [ 24%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp: In instantiation of 'void io::binary::{anonymous}::BinReader::Read() [with T = omnigraph::FlankingCoverage]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:265:41: required from here 265 | reader.Read>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.cpp:130:14: warning: unused variable 'loaded' [-Wunused-variable] 130 | auto loaded = io.BinRead(is, component); | ^~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/SerialBgzfStream_p.cpp [ 24%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c [ 24%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c:32: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c: In function 'bgzf_check_EOF': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:73:34: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 73 | #define _bgzf_read(fp, buf, len) fread(buf, 1, len, (_bgzf_file_t)fp) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.c:578:9: note: in expansion of macro '_bgzf_read' 578 | _bgzf_read(fp->fp, buf, 28); | ^~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c:46: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c: In function 'kftp_send_cmd': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c:236:9: note: in expansion of macro 'netwrite' 236 | netwrite(ftp->ctrl_fd, cmd, strlen(cmd)); | ^~~~~~~~ [ 24%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o [ 24%] Building C object ext/easel/CMakeFiles/easel.dir/esl_heap.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_heap.c.o -MF CMakeFiles/easel.dir/esl_heap.c.o.d -o CMakeFiles/easel.dir/esl_heap.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_heap.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/block.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c: In function 'khttp_connect_file': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.h:9:32: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 9 | #define netwrite(fd, ptr, len) write(fd, ptr, len) | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/knetfile.c:415:9: note: in expansion of macro 'netwrite' 415 | netwrite(fp->fd, buf, l); | ^~~~~~~~ [ 24%] Building C object ext/easel/CMakeFiles/easel.dir/esl_histogram.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_histogram.c.o -MF CMakeFiles/easel.dir/esl_histogram.c.o.d -o CMakeFiles/easel.dir/esl_histogram.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_histogram.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/block.c:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/block.c:4: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ [ 24%] Building C object ext/easel/CMakeFiles/easel.dir/esl_hmm.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_hmm.c.o -MF CMakeFiles/easel.dir/esl_hmm.c.o.d -o CMakeFiles/easel.dir/esl_hmm.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_hmm.c [ 25%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringExtras.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/StringExtras.cpp.o -MF CMakeFiles/llvm-support.dir/StringExtras.cpp.o.d -o CMakeFiles/llvm-support.dir/StringExtras.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/StringExtras.cpp [ 25%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringMap.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/StringMap.cpp.o -MF CMakeFiles/llvm-support.dir/StringMap.cpp.o.d -o CMakeFiles/llvm-support.dir/StringMap.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/StringMap.cpp [ 25%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringRef.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/StringRef.cpp.o -MF CMakeFiles/llvm-support.dir/StringRef.cpp.o.d -o CMakeFiles/llvm-support.dir/StringRef.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/StringRef.cpp [ 25%] Building C object ext/easel/CMakeFiles/easel.dir/esl_hyperexp.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_hyperexp.c.o -MF CMakeFiles/easel.dir/esl_hyperexp.c.o.d -o CMakeFiles/easel.dir/esl_hyperexp.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_hyperexp.c [ 25%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/StringSaver.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/StringSaver.cpp.o -MF CMakeFiles/llvm-support.dir/StringSaver.cpp.o.d -o CMakeFiles/llvm-support.dir/StringSaver.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/StringSaver.cpp [ 26%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/consumer.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/consumer.c:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/consumer.c:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Process.cpp:100: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Process.inc: In static member function 'static size_t llvm::sys::Process::GetMallocUsage()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Process.inc:94:18: warning: 'mallinfo mallinfo()' is deprecated [-Wdeprecated-declarations] 94 | mi = ::mallinfo(); | ~~~~~~~~~~^~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Process.inc:35: /usr/include/malloc.h:114:24: note: declared here 114 | extern struct mallinfo mallinfo (void) __THROW __MALLOC_DEPRECATED; | ^~~~~~~~ [ 27%] Building C object ext/easel/CMakeFiles/easel.dir/esl_keyhash.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_keyhash.c.o -MF CMakeFiles/easel.dir/esl_keyhash.c.o.d -o CMakeFiles/easel.dir/esl_keyhash.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_keyhash.c [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Threading.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Threading.cpp.o -MF CMakeFiles/llvm-support.dir/Threading.cpp.o.d -o CMakeFiles/llvm-support.dir/Threading.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Threading.cpp [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o -MF CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o.d -o CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/ThreadLocal.cpp [ 29%] Building C object ext/easel/CMakeFiles/easel.dir/esl_mem.c.o [ 29%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_mem.c.o -MF CMakeFiles/easel.dir/esl_mem.c.o.d -o CMakeFiles/easel.dir/esl_mem.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_mem.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.c:14: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.c:13: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ [ 29%] Building C object ext/easel/CMakeFiles/easel.dir/esl_minimizer.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_minimizer.c.o -MF CMakeFiles/easel.dir/esl_minimizer.c.o.d -o CMakeFiles/easel.dir/esl_minimizer.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_minimizer.c [ 29%] Building C object ext/easel/CMakeFiles/easel.dir/esl_mixgev.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_mixgev.c.o -MF CMakeFiles/easel.dir/esl_mixgev.c.o.d -o CMakeFiles/easel.dir/esl_mixgev.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_mixgev.c [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o -MF CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o.d -o CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/TimeProfiler.cpp [ 29%] Building C object ext/easel/CMakeFiles/easel.dir/esl_mpi.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_mpi.c.o -MF CMakeFiles/easel.dir/esl_mpi.c.o.d -o CMakeFiles/easel.dir/esl_mpi.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_mpi.c [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Twine.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Twine.cpp.o -MF CMakeFiles/llvm-support.dir/Twine.cpp.o.d -o CMakeFiles/llvm-support.dir/Twine.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Twine.cpp [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/Unicode.cpp.o [ 29%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/Unicode.cpp.o -MF CMakeFiles/llvm-support.dir/Unicode.cpp.o.d -o CMakeFiles/llvm-support.dir/Unicode.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/Unicode.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/queue.c [ 29%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/WithColor.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/WithColor.cpp.o -MF CMakeFiles/llvm-support.dir/WithColor.cpp.o.d -o CMakeFiles/llvm-support.dir/WithColor.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/WithColor.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/queue.c: In function 'queue_print_status': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/queue.c:344:62: warning: format '%lld' expects argument of type 'long long int', but argument 8 has type 'int64_t' {aka 'long int'} [-Wformat=] 344 | fprintf(fp, "mem=%d head=%d tail=%d n=%d length=%d id=%lld ordered=%d num_adders=%d num_getters=%d\n", | ~~~^ | | | long long int | %ld 345 | q->mem, q->head, q->tail, q->n, q->length, q->id, q->ordered, q->num_adders, q->num_getters); | ~~~~~ | | | int64_t {aka long int} In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/queue.c:6: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h: At top level: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ [ 30%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msa.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msa.c.o -MF CMakeFiles/easel.dir/esl_msa.c.o.d -o CMakeFiles/easel.dir/esl_msa.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msa.c [ 30%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/reader.c [ 30%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msacluster.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msacluster.c.o -MF CMakeFiles/easel.dir/esl_msacluster.c.o.d -o CMakeFiles/easel.dir/esl_msacluster.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msacluster.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_reader.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_reader.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/reader.c:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/reader.c:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ [ 30%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile.c.o -MF CMakeFiles/easel.dir/esl_msafile.c.o.d -o CMakeFiles/easel.dir/esl_msafile.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile.c [ 30%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile2.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile2.c.o -MF CMakeFiles/easel.dir/esl_msafile2.c.o.d -o CMakeFiles/easel.dir/esl_msafile2.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile2.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 30%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o [ 30%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o -MF CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o.d -o CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/YAMLTraits.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 31%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/YAMLParser.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/YAMLParser.cpp.o -MF CMakeFiles/llvm-support.dir/YAMLParser.cpp.o.d -o CMakeFiles/llvm-support.dir/YAMLParser.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/YAMLParser.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 31%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_a2m.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_a2m.c.o -MF CMakeFiles/easel.dir/esl_msafile_a2m.c.o.d -o CMakeFiles/easel.dir/esl_msafile_a2m.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_a2m.c [ 32%] Building C object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cc -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o -MF CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o.d -o CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/writer.c [ 33%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_afa.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_afa.c.o -MF CMakeFiles/easel.dir/esl_msafile_afa.c.o.d -o CMakeFiles/easel.dir/esl_msafile_afa.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_afa.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_writer.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_writer.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 33%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/sam/SamFormatParser_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/sam/SamFormatParser_p.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/fastg_writer.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/fastg_writer.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 33%] Linking CXX static library libsequence.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/sequence && /usr/bin/cmake -P CMakeFiles/sequence.dir/cmake_clean_target.cmake In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/pbgzf.h:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/writer.c:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:8:1: warning: inline function 'safe_mutex_unlock' declared but never defined 8 | safe_mutex_unlock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/util.h:5:1: warning: inline function 'safe_mutex_lock' declared but never defined 5 | safe_mutex_lock(pthread_mutex_t *mutex); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/writer.c:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/io/pbgzf/bgzf.h:240:11: warning: inline function 'unpackInt16' declared but never defined 240 | unpackInt16(const uint8_t* buffer); | ^~~~~~~~~~~ [ 33%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/sam/SamFormatPrinter_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/sam/SamFormatPrinter_p.cpp [ 33%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_clustal.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_clustal.c.o -MF CMakeFiles/easel.dir/esl_msafile_clustal.c.o.d -o CMakeFiles/easel.dir/esl_msafile_clustal.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_clustal.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/sequence && /usr/bin/cmake -E cmake_link_script CMakeFiles/sequence.dir/link.txt --verbose=1 [ 33%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o -MF CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o.d -o CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/raw_os_ostream.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_reader.cpp:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/construction_helper.hpp: In instantiation of 'void omnigraph::ConstructionHelper::DeleteLink(VertexId, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster; VertexId = omnigraph::impl::VertexId; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/construction_helper.hpp:97:9: required from 'void omnigraph::ConstructionHelper::LinkEdges(EdgeId, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster; EdgeId = omnigraph::impl::EdgeId]' 97 | DeleteLink(w, e2); | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_reader.cpp:109:33: required from here 109 | helper.LinkEdges(e1, e2); | ~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/construction_helper.hpp:102:14: warning: unused variable 'res' [-Wunused-variable] 102 | bool res = graph_.vertex(v).RemoveOutgoingEdge(e); | ^~~ /usr/bin/ar qc libsequence.a CMakeFiles/sequence.dir/sequence_tools.cpp.o /usr/bin/ranlib libsequence.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 33%] Built target sequence [ 34%] Linking CXX static library libformat.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat && /usr/bin/cmake -P CMakeFiles/format.dir/cmake_clean_target.cmake [ 34%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o [ 34%] Building CXX object ext/llvm/CMakeFiles/llvm-support.dir/raw_ostream.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/utils/BamException_p.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/raw_ostream.cpp.o -MF CMakeFiles/llvm-support.dir/raw_ostream.cpp.o.d -o CMakeFiles/llvm-support.dir/raw_ostream.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/raw_ostream.cpp [ 34%] Building CXX object ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat && /usr/bin/cmake -E cmake_link_script CMakeFiles/format.dir/link.txt --verbose=1 cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/c++ -DBAMTOOLS_API_LIBRARY -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api/internal/sam/SamHeaderValidator_p.cpp [ 34%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regcomp.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regcomp.c.o -MF CMakeFiles/llvm-support.dir/regcomp.c.o.d -o CMakeFiles/llvm-support.dir/regcomp.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/regcomp.c [ 34%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regerror.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regerror.c.o -MF CMakeFiles/llvm-support.dir/regerror.c.o.d -o CMakeFiles/llvm-support.dir/regerror.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/regerror.c [ 36%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regexec.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regexec.c.o -MF CMakeFiles/llvm-support.dir/regexec.c.o.d -o CMakeFiles/llvm-support.dir/regexec.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/regexec.c /usr/bin/ar qc libformat.a CMakeFiles/format.dir/format.cc.o CMakeFiles/format.dir/posix.cc.o /usr/bin/ranlib libformat.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 36%] Built target format make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 36%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regfree.c.o [ 36%] Building C object ext/llvm/CMakeFiles/llvm-support.dir/regstrlcpy.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regfree.c.o -MF CMakeFiles/llvm-support.dir/regfree.c.o.d -o CMakeFiles/llvm-support.dir/regfree.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/regfree.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D__STDC_CONSTANT_MACROS -D__STDC_LIMIT_MACROS -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/llvm/CMakeFiles/llvm-support.dir/regstrlcpy.c.o -MF CMakeFiles/llvm-support.dir/regstrlcpy.c.o.d -o CMakeFiles/llvm-support.dir/regstrlcpy.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm/regstrlcpy.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 36%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_phylip.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_phylip.c.o -MF CMakeFiles/easel.dir/esl_msafile_phylip.c.o.d -o CMakeFiles/easel.dir/esl_msafile_phylip.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_phylip.c [ 36%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_psiblast.c.o [ 36%] Built target mimalloc-obj cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_psiblast.c.o -MF CMakeFiles/easel.dir/esl_msafile_psiblast.c.o.d -o CMakeFiles/easel.dir/esl_msafile_psiblast.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_psiblast.c [ 36%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_selex.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_selex.c.o -MF CMakeFiles/easel.dir/esl_msafile_selex.c.o.d -o CMakeFiles/easel.dir/esl_msafile_selex.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_selex.c make -f common/utils/CMakeFiles/utils.dir/build.make common/utils/CMakeFiles/utils.dir/depend In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/DependInfo.cmake "--color=" [ 36%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msafile_stockholm.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msafile_stockholm.c.o -MF CMakeFiles/easel.dir/esl_msafile_stockholm.c.o.d -o CMakeFiles/easel.dir/esl_msafile_stockholm.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msafile_stockholm.c make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/utils/CMakeFiles/utils.dir/build.make common/utils/CMakeFiles/utils.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 37%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msashuffle.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msashuffle.c.o -MF CMakeFiles/easel.dir/esl_msashuffle.c.o.d -o CMakeFiles/easel.dir/esl_msashuffle.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msashuffle.c [ 37%] Building CXX object common/utils/CMakeFiles/utils.dir/memory_limit.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/utils/CMakeFiles/utils.dir/memory_limit.cpp.o -MF CMakeFiles/utils.dir/memory_limit.cpp.o.d -o CMakeFiles/utils.dir/memory_limit.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/memory_limit.cpp [ 37%] Building C object ext/easel/CMakeFiles/easel.dir/esl_msaweight.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_msaweight.c.o -MF CMakeFiles/easel.dir/esl_msaweight.c.o.d -o CMakeFiles/easel.dir/esl_msaweight.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_msaweight.c [ 37%] Building CXX object common/utils/CMakeFiles/utils.dir/filesystem/copy_file.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/utils/CMakeFiles/utils.dir/filesystem/copy_file.cpp.o -MF CMakeFiles/utils.dir/filesystem/copy_file.cpp.o.d -o CMakeFiles/utils.dir/filesystem/copy_file.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/filesystem/copy_file.cpp [ 37%] Building CXX object common/utils/CMakeFiles/utils.dir/filesystem/path_helper.cpp.o [ 37%] Building C object ext/easel/CMakeFiles/easel.dir/esl_normal.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_normal.c.o -MF CMakeFiles/easel.dir/esl_normal.c.o.d -o CMakeFiles/easel.dir/esl_normal.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_normal.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/utils/CMakeFiles/utils.dir/filesystem/path_helper.cpp.o -MF CMakeFiles/utils.dir/filesystem/path_helper.cpp.o.d -o CMakeFiles/utils.dir/filesystem/path_helper.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/filesystem/path_helper.cpp [ 38%] Building CXX object common/utils/CMakeFiles/utils.dir/filesystem/temporary.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/utils/CMakeFiles/utils.dir/filesystem/temporary.cpp.o -MF CMakeFiles/utils.dir/filesystem/temporary.cpp.o.d -o CMakeFiles/utils.dir/filesystem/temporary.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/filesystem/temporary.cpp [ 38%] Building CXX object common/utils/CMakeFiles/utils.dir/filesystem/glob.cpp.o [ 38%] Building CXX object common/utils/CMakeFiles/utils.dir/logger/logger_impl.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/utils/CMakeFiles/utils.dir/filesystem/glob.cpp.o -MF CMakeFiles/utils.dir/filesystem/glob.cpp.o.d -o CMakeFiles/utils.dir/filesystem/glob.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/filesystem/glob.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/utils/CMakeFiles/utils.dir/logger/logger_impl.cpp.o -MF CMakeFiles/utils.dir/logger/logger_impl.cpp.o.d -o CMakeFiles/utils.dir/logger/logger_impl.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/logger/logger_impl.cpp [ 38%] Building C object ext/easel/CMakeFiles/easel.dir/esl_paml.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_paml.c.o -MF CMakeFiles/easel.dir/esl_paml.c.o.d -o CMakeFiles/easel.dir/esl_paml.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_paml.c [ 38%] Building C object ext/easel/CMakeFiles/easel.dir/esl_random.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_random.c.o -MF CMakeFiles/easel.dir/esl_random.c.o.d -o CMakeFiles/easel.dir/esl_random.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_random.c [ 39%] Building C object ext/easel/CMakeFiles/easel.dir/esl_randomseq.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_randomseq.c.o -MF CMakeFiles/easel.dir/esl_randomseq.c.o.d -o CMakeFiles/easel.dir/esl_randomseq.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_randomseq.c [ 39%] Building C object ext/easel/CMakeFiles/easel.dir/esl_ratematrix.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_ratematrix.c.o -MF CMakeFiles/easel.dir/esl_ratematrix.c.o.d -o CMakeFiles/easel.dir/esl_ratematrix.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_ratematrix.c [ 39%] Building C object ext/easel/CMakeFiles/easel.dir/esl_recorder.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_recorder.c.o -MF CMakeFiles/easel.dir/esl_recorder.c.o.d -o CMakeFiles/easel.dir/esl_recorder.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_recorder.c [ 39%] Building C object ext/easel/CMakeFiles/easel.dir/esl_regexp.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_regexp.c.o -MF CMakeFiles/easel.dir/esl_regexp.c.o.d -o CMakeFiles/easel.dir/esl_regexp.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_regexp.c [ 39%] Building C object ext/easel/CMakeFiles/easel.dir/esl_rootfinder.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_rootfinder.c.o -MF CMakeFiles/easel.dir/esl_rootfinder.c.o.d -o CMakeFiles/easel.dir/esl_rootfinder.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_rootfinder.c [ 40%] Building C object ext/easel/CMakeFiles/easel.dir/esl_scorematrix.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_scorematrix.c.o -MF CMakeFiles/easel.dir/esl_scorematrix.c.o.d -o CMakeFiles/easel.dir/esl_scorematrix.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_scorematrix.c [ 40%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sq.c.o In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sq.c.o -MF CMakeFiles/easel.dir/esl_sq.c.o.d -o CMakeFiles/easel.dir/esl_sq.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_sq.c [ 40%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sqio.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sqio.c.o -MF CMakeFiles/easel.dir/esl_sqio.c.o.d -o CMakeFiles/easel.dir/esl_sqio.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_sqio.c [ 40%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sqio_ascii.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sqio_ascii.c.o -MF CMakeFiles/easel.dir/esl_sqio_ascii.c.o.d -o CMakeFiles/easel.dir/esl_sqio_ascii.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_sqio_ascii.c [ 40%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sqio_ncbi.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sqio_ncbi.c.o -MF CMakeFiles/easel.dir/esl_sqio_ncbi.c.o.d -o CMakeFiles/easel.dir/esl_sqio_ncbi.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_sqio_ncbi.c [ 41%] Building C object ext/easel/CMakeFiles/easel.dir/esl_sse.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_sse.c.o -MF CMakeFiles/easel.dir/esl_sse.c.o.d -o CMakeFiles/easel.dir/esl_sse.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_sse.c [ 41%] Building C object ext/easel/CMakeFiles/easel.dir/esl_ssi.c.o /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_ssi.c.o -MF CMakeFiles/easel.dir/esl_ssi.c.o.d -o CMakeFiles/easel.dir/esl_ssi.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_ssi.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 41%] Building C object ext/easel/CMakeFiles/easel.dir/esl_stats.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_stats.c.o -MF CMakeFiles/easel.dir/esl_stats.c.o.d -o CMakeFiles/easel.dir/esl_stats.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_stats.c [ 41%] Building C object ext/easel/CMakeFiles/easel.dir/esl_stack.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_stack.c.o -MF CMakeFiles/easel.dir/esl_stack.c.o.d -o CMakeFiles/easel.dir/esl_stack.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_stack.c [ 41%] Building C object ext/easel/CMakeFiles/easel.dir/esl_stopwatch.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_stopwatch.c.o -MF CMakeFiles/easel.dir/esl_stopwatch.c.o.d -o CMakeFiles/easel.dir/esl_stopwatch.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_stopwatch.c [ 41%] Building C object ext/easel/CMakeFiles/easel.dir/esl_threads.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_threads.c.o -MF CMakeFiles/easel.dir/esl_threads.c.o.d -o CMakeFiles/easel.dir/esl_threads.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_threads.c [ 43%] Building C object ext/easel/CMakeFiles/easel.dir/esl_stretchexp.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_stretchexp.c.o -MF CMakeFiles/easel.dir/esl_stretchexp.c.o.d -o CMakeFiles/easel.dir/esl_stretchexp.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_stretchexp.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 43%] Building C object ext/easel/CMakeFiles/easel.dir/esl_tree.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_tree.c.o -MF CMakeFiles/easel.dir/esl_tree.c.o.d -o CMakeFiles/easel.dir/esl_tree.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_tree.c [ 43%] Building C object ext/easel/CMakeFiles/easel.dir/esl_vectorops.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_vectorops.c.o -MF CMakeFiles/easel.dir/esl_vectorops.c.o.d -o CMakeFiles/easel.dir/esl_vectorops.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_vectorops.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 43%] Building C object ext/easel/CMakeFiles/easel.dir/esl_vmx.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_vmx.c.o -MF CMakeFiles/easel.dir/esl_vmx.c.o.d -o CMakeFiles/easel.dir/esl_vmx.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_vmx.c [ 44%] Building C object ext/easel/CMakeFiles/easel.dir/esl_weibull.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_weibull.c.o -MF CMakeFiles/easel.dir/esl_weibull.c.o.d -o CMakeFiles/easel.dir/esl_weibull.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_weibull.c In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_scorematrix.c:23: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_scorematrix.c: In function 'esl_scorematrix_Create': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/easel.h:166:17: warning: argument 1 range [18446744071562067969, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 166 | if ( ((p) = malloc(size)) == NULL) { \ | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_scorematrix.c:72:3: note: in expansion of macro 'ESL_ALLOC' 72 | ESL_ALLOC(S->outorder, sizeof(char) * (abc->Kp+1)); | ^~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/easel.h:23: /usr/include/stdlib.h:672:14: note: in a call to allocation function 'malloc' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^~~~~~ [ 44%] Building C object ext/easel/CMakeFiles/easel.dir/esl_wuss.c.o [ 44%] Building C object ext/easel/CMakeFiles/easel.dir/esl_workqueue.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_wuss.c.o -MF CMakeFiles/easel.dir/esl_wuss.c.o.d -o CMakeFiles/easel.dir/esl_wuss.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_wuss.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/easel/CMakeFiles/easel.dir/esl_workqueue.c.o -MF CMakeFiles/easel.dir/esl_workqueue.c.o.d -o CMakeFiles/easel.dir/esl_workqueue.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel/esl_workqueue.c In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [ 45%] Linking CXX static library libBamTools.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cmake -P CMakeFiles/BamTools.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 [ 46%] Linking CXX static library libgraphio.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/graph && /usr/bin/cmake -P CMakeFiles/graphio.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/graph && /usr/bin/cmake -E cmake_link_script CMakeFiles/graphio.dir/link.txt --verbose=1 /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/bin/ar qc libgraphio.a CMakeFiles/graphio.dir/gfa_reader.cpp.o CMakeFiles/graphio.dir/gfa_writer.cpp.o CMakeFiles/graphio.dir/fastg_writer.cpp.o /usr/bin/ranlib libgraphio.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 46%] Built target graphio /usr/bin/ar qc libBamTools.a CMakeFiles/BamTools.dir/BamAlignment.cpp.o CMakeFiles/BamTools.dir/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/BamReader.cpp.o CMakeFiles/BamTools.dir/BamWriter.cpp.o CMakeFiles/BamTools.dir/SamHeader.cpp.o CMakeFiles/BamTools.dir/SamProgram.cpp.o CMakeFiles/BamTools.dir/SamProgramChain.cpp.o CMakeFiles/BamTools.dir/SamReadGroup.cpp.o CMakeFiles/BamTools.dir/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools.dir/SamSequence.cpp.o CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools.dir/internal/bam/BamRandomAccessController_p.cpp.o 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/bam_sort.c.o -MF CMakeFiles/samtools.dir/bam_sort.c.o.d -o CMakeFiles/samtools.dir/bam_sort.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_sort.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cc -DMD5SUM_MAIN -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_CURSES_LIB=1 -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/sam_header.c.o -MF CMakeFiles/samtools.dir/sam_header.c.o.d -o CMakeFiles/samtools.dir/sam_header.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/sam_header.c [ 50%] Building C object ext/samtools/CMakeFiles/samtools.dir/bam_reheader.c.o [ 50%] Building C object ext/samtools/CMakeFiles/samtools.dir/bam_lpileup.c.o [ 50%] Building C object ext/samtools/CMakeFiles/samtools.dir/kprobaln.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cc -DMD5SUM_MAIN -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_CURSES_LIB=1 -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/bam_reheader.c.o -MF CMakeFiles/samtools.dir/bam_reheader.c.o.d -o CMakeFiles/samtools.dir/bam_reheader.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_reheader.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cc -DMD5SUM_MAIN -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_CURSES_LIB=1 -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/bam_lpileup.c.o -MF CMakeFiles/samtools.dir/bam_lpileup.c.o.d -o CMakeFiles/samtools.dir/bam_lpileup.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_lpileup.c [ 50%] Building C object ext/samtools/CMakeFiles/samtools.dir/razf.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cc -DMD5SUM_MAIN -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_CURSES_LIB=1 -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/razf.c.o -MF CMakeFiles/samtools.dir/razf.c.o.d -o CMakeFiles/samtools.dir/razf.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cc -DMD5SUM_MAIN -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_CURSES_LIB=1 -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/kprobaln.c.o -MF CMakeFiles/samtools.dir/kprobaln.c.o.d -o CMakeFiles/samtools.dir/kprobaln.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/kprobaln.c [ 50%] Building C object ext/samtools/CMakeFiles/samtools.dir/faidx.c.o [ 50%] Building C object ext/samtools/CMakeFiles/samtools.dir/bam_cat.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cc -DMD5SUM_MAIN -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_CURSES_LIB=1 -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/faidx.c.o -MF CMakeFiles/samtools.dir/faidx.c.o.d -o CMakeFiles/samtools.dir/faidx.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/faidx.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cc -DMD5SUM_MAIN -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -D_CURSES_LIB=1 -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/samtools/CMakeFiles/samtools.dir/bam_cat.c.o -MF CMakeFiles/samtools.dir/bam_cat.c.o.d -o CMakeFiles/samtools.dir/bam_cat.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_cat.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c: In function 'razf_flush': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:221:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 221 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:234:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 234 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c: In function '_razf_write': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:201:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 201 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c: In function 'razf_close': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:804:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 804 | write(rz->x.fpw, &rz->in, sizeof(int64_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:805:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 805 | write(rz->x.fpw, &rz->out, sizeof(int64_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:808:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 808 | write(rz->x.fpw, &v64, sizeof(int64_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:810:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 810 | write(rz->x.fpw, &v64, sizeof(int64_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c: In function 'razf_end_flush': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:258:25: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 258 | write(rz->x.fpw, rz->outbuf, RZ_BUFFER_SIZE - rz->stream->avail_out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c: In function 'save_zindex': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:96:19: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 96 | if(is_be) write(fd, &rz->index->size, sizeof(int)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:99:17: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 99 | write(fd, &v32, sizeof(uint32_t)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:106:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 106 | write(fd, rz->index->bin_offsets, sizeof(int64_t) * v32); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/razf.c:107:9: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 107 | write(fd, rz->index->cell_offsets, sizeof(int32_t) * rz->index->size); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c: In function 'bam_index_load_core': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:335:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 335 | fread(magic, 1, 4, fp); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:342:9: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 342 | fread(&idx->n, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:355:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 355 | fread(&size, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:358:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 358 | fread(&key, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:362:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 362 | fread(&p->n, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:366:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 366 | fread(p->list, 16, p->n, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:376:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 376 | fread(&index2->n, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools/bam_index.c:380:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 380 | fread(index2->offset, index2->n, 8, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/bin/ar qc libeasel.a CMakeFiles/easel.dir/easel.c.o CMakeFiles/easel.dir/esl_alphabet.c.o 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-I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/emit.c.o -MF CMakeFiles/hmmer.dir/src/emit.c.o.d -o CMakeFiles/hmmer.dir/src/emit.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/emit.c [ 52%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/evalues.c.o [ 52%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/generic_decoding.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/evalues.c.o -MF CMakeFiles/hmmer.dir/src/evalues.c.o.d -o CMakeFiles/hmmer.dir/src/evalues.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/evalues.c [ 53%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/generic_msv.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/generic_decoding.c.o -MF CMakeFiles/hmmer.dir/src/generic_decoding.c.o.d -o CMakeFiles/hmmer.dir/src/generic_decoding.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/generic_decoding.c [ 53%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/generic_fwdback_chk.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/generic_fwdback_chk.c.o -MF CMakeFiles/hmmer.dir/src/generic_fwdback_chk.c.o.d -o CMakeFiles/hmmer.dir/src/generic_fwdback_chk.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/generic_fwdback_chk.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/generic_msv.c.o -MF CMakeFiles/hmmer.dir/src/generic_msv.c.o.d -o CMakeFiles/hmmer.dir/src/generic_msv.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/generic_msv.c [ 53%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/generic_optacc.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/generic_optacc.c.o -MF CMakeFiles/hmmer.dir/src/generic_optacc.c.o.d -o CMakeFiles/hmmer.dir/src/generic_optacc.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/generic_optacc.c [ 53%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/generic_stotrace.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/generic_stotrace.c.o -MF CMakeFiles/hmmer.dir/src/generic_stotrace.c.o.d -o CMakeFiles/hmmer.dir/src/generic_stotrace.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/generic_stotrace.c [ 53%] Linking CXX static library libcoverage_model.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model && /usr/bin/cmake -P CMakeFiles/coverage_model.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model && /usr/bin/cmake -E cmake_link_script CMakeFiles/coverage_model.dir/link.txt --verbose=1 [ 53%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/generic_viterbi.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/generic_viterbi.c.o -MF CMakeFiles/hmmer.dir/src/generic_viterbi.c.o.d -o CMakeFiles/hmmer.dir/src/generic_viterbi.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/generic_viterbi.c [ 53%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/generic_vtrace.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/generic_vtrace.c.o -MF CMakeFiles/hmmer.dir/src/generic_vtrace.c.o.d -o CMakeFiles/hmmer.dir/src/generic_vtrace.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/generic_vtrace.c [ 54%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/h2_io.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/h2_io.c.o -MF CMakeFiles/hmmer.dir/src/h2_io.c.o.d -o CMakeFiles/hmmer.dir/src/h2_io.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/h2_io.c [ 54%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/heatmap.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/heatmap.c.o -MF CMakeFiles/hmmer.dir/src/heatmap.c.o.d -o CMakeFiles/hmmer.dir/src/heatmap.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/heatmap.c [ 54%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/hmmlogo.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/hmmlogo.c.o -MF CMakeFiles/hmmer.dir/src/hmmlogo.c.o.d -o CMakeFiles/hmmer.dir/src/hmmlogo.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/hmmlogo.c /usr/bin/ar qc libcoverage_model.a CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o /usr/bin/ranlib libcoverage_model.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 54%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/hmmdmstr.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/hmmdmstr.c.o -MF CMakeFiles/hmmer.dir/src/hmmdmstr.c.o.d -o CMakeFiles/hmmer.dir/src/hmmdmstr.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/hmmdmstr.c [ 54%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/hmmdwrkr.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/hmmdwrkr.c.o -MF CMakeFiles/hmmer.dir/src/hmmdwrkr.c.o.d -o CMakeFiles/hmmer.dir/src/hmmdwrkr.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/hmmdwrkr.c [ 55%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/hmmdutils.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/hmmdutils.c.o -MF CMakeFiles/hmmer.dir/src/hmmdutils.c.o.d -o CMakeFiles/hmmer.dir/src/hmmdutils.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/hmmdutils.c [ 55%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/hmmer.c.o [ 55%] Built target coverage_model cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/hmmer.c.o -MF CMakeFiles/hmmer.dir/src/hmmer.c.o.d -o CMakeFiles/hmmer.dir/src/hmmer.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/hmmer.c [ 55%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/logsum.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/logsum.c.o -MF CMakeFiles/hmmer.dir/src/logsum.c.o.d -o CMakeFiles/hmmer.dir/src/logsum.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/logsum.c [ 55%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/modelconfig.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/modelconfig.c.o -MF CMakeFiles/hmmer.dir/src/modelconfig.c.o.d -o CMakeFiles/hmmer.dir/src/modelconfig.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/modelconfig.c [ 56%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/mpisupport.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/mpisupport.c.o -MF CMakeFiles/hmmer.dir/src/mpisupport.c.o.d -o CMakeFiles/hmmer.dir/src/mpisupport.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/mpisupport.c [ 56%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/tracealign.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/tracealign.c.o -MF CMakeFiles/hmmer.dir/src/tracealign.c.o.d -o CMakeFiles/hmmer.dir/src/tracealign.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/tracealign.c [ 56%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/seqmodel.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/seqmodel.c.o -MF CMakeFiles/hmmer.dir/src/seqmodel.c.o.d -o CMakeFiles/hmmer.dir/src/seqmodel.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/seqmodel.c [ 56%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/modelstats.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/modelstats.c.o -MF CMakeFiles/hmmer.dir/src/modelstats.c.o.d -o CMakeFiles/hmmer.dir/src/modelstats.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/modelstats.c [ 56%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_bg.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_bg.c.o -MF CMakeFiles/hmmer.dir/src/p7_bg.c.o.d -o CMakeFiles/hmmer.dir/src/p7_bg.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_bg.c [ 58%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_domaindef.c.o [ 58%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_builder.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_builder.c.o -MF CMakeFiles/hmmer.dir/src/p7_builder.c.o.d -o CMakeFiles/hmmer.dir/src/p7_builder.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_builder.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_domaindef.c.o -MF CMakeFiles/hmmer.dir/src/p7_domaindef.c.o.d -o CMakeFiles/hmmer.dir/src/p7_domaindef.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_domaindef.c [ 58%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_alidisplay.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_alidisplay.c.o -MF CMakeFiles/hmmer.dir/src/p7_alidisplay.c.o.d -o CMakeFiles/hmmer.dir/src/p7_alidisplay.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_alidisplay.c [ 58%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gbands.c.o /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gbands.c.o -MF CMakeFiles/hmmer.dir/src/p7_gbands.c.o.d -o CMakeFiles/hmmer.dir/src/p7_gbands.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_gbands.c [ 58%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gmx.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gmx.c.o -MF CMakeFiles/hmmer.dir/src/p7_gmx.c.o.d -o CMakeFiles/hmmer.dir/src/p7_gmx.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_gmx.c [ 58%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gmxb.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gmxb.c.o -MF CMakeFiles/hmmer.dir/src/p7_gmxb.c.o.d -o CMakeFiles/hmmer.dir/src/p7_gmxb.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_gmxb.c [ 59%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gmxchk.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_gmxchk.c.o -MF CMakeFiles/hmmer.dir/src/p7_gmxchk.c.o.d -o CMakeFiles/hmmer.dir/src/p7_gmxchk.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_gmxchk.c [ 59%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_hmmcache.c.o /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_hmmcache.c.o -MF CMakeFiles/hmmer.dir/src/p7_hmmcache.c.o.d -o CMakeFiles/hmmer.dir/src/p7_hmmcache.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_hmmcache.c [ 59%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_hmmfile.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem 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-DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_hmm.c.o -MF CMakeFiles/hmmer.dir/src/p7_hmm.c.o.d -o CMakeFiles/hmmer.dir/src/p7_hmm.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_hmm.c [ 59%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_hmmwindow.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_hmmwindow.c.o -MF CMakeFiles/hmmer.dir/src/p7_hmmwindow.c.o.d -o CMakeFiles/hmmer.dir/src/p7_hmmwindow.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_hmmwindow.c [ 60%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_null3.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_null3.c.o -MF CMakeFiles/hmmer.dir/src/p7_null3.c.o.d -o CMakeFiles/hmmer.dir/src/p7_null3.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_null3.c [ 60%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_profile.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src 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CMakeFiles/hmmer.dir/src/p7_profile.c.o.d -o CMakeFiles/hmmer.dir/src/p7_profile.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_profile.c [ 60%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_prior.c.o [ 60%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_pipeline.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_pipeline.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_prior.c.o -MF CMakeFiles/hmmer.dir/src/p7_prior.c.o.d -o CMakeFiles/hmmer.dir/src/p7_prior.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_prior.c [ 61%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_tophits.c.o cd 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_tophits.c.o -MF CMakeFiles/hmmer.dir/src/p7_tophits.c.o.d -o CMakeFiles/hmmer.dir/src/p7_tophits.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_tophits.c [ 61%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_spensemble.c.o [ 61%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_trace.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_spensemble.c.o -MF CMakeFiles/hmmer.dir/src/p7_spensemble.c.o.d -o CMakeFiles/hmmer.dir/src/p7_spensemble.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_spensemble.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_trace.c.o -MF CMakeFiles/hmmer.dir/src/p7_trace.c.o.d -o CMakeFiles/hmmer.dir/src/p7_trace.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_trace.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 61%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/p7_scoredata.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/p7_scoredata.c.o -MF CMakeFiles/hmmer.dir/src/p7_scoredata.c.o.d -o CMakeFiles/hmmer.dir/src/p7_scoredata.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/p7_scoredata.c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 61%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/hmmpgmd2msa.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/hmmpgmd2msa.c.o -MF CMakeFiles/hmmer.dir/src/hmmpgmd2msa.c.o.d -o CMakeFiles/hmmer.dir/src/hmmpgmd2msa.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/hmmpgmd2msa.c [ 61%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/fm_alphabet.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem 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[ 62%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/fm_general.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem 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-I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/decoding.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/decoding.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/decoding.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/decoding.c [ 62%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/fm_ssv.c.o [ 63%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/io.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/fm_ssv.c.o -MF CMakeFiles/hmmer.dir/src/fm_ssv.c.o.d -o CMakeFiles/hmmer.dir/src/fm_ssv.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/fm_ssv.c cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/io.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/io.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/io.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/io.c [ 63%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/fwdback.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/fwdback.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/fwdback.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/fwdback.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/fwdback.c [ 63%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/msvfilter.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/msvfilter.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/msvfilter.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/msvfilter.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/msvfilter.c [ 63%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/ssvfilter.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/ssvfilter.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/ssvfilter.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/ssvfilter.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/ssvfilter.c [ 63%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/optacc.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/optacc.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/optacc.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/optacc.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/optacc.c [ 63%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/null2.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/null2.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/null2.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/null2.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/null2.c [ 65%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/stotrace.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/stotrace.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/stotrace.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/stotrace.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/stotrace.c [ 65%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/p7_omx.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/p7_omx.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/p7_omx.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/p7_omx.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/p7_omx.c [ 65%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/vitfilter.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/vitfilter.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/vitfilter.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/vitfilter.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/vitfilter.c [ 65%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/p7_oprofile.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/p7_oprofile.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/p7_oprofile.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/p7_oprofile.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/p7_oprofile.c [ 65%] Building C object ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/mpi.c.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cc -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wno-deprecated -O2 -MD -MT ext/hmmer/CMakeFiles/hmmer.dir/src/impl_sse/mpi.c.o -MF CMakeFiles/hmmer.dir/src/impl_sse/mpi.c.o.d -o CMakeFiles/hmmer.dir/src/impl_sse/mpi.c.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src/impl_sse/mpi.c [ 65%] Linking CXX static library libsamtools.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cmake -P CMakeFiles/samtools.dir/cmake_clean_target.cmake In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/vector:63, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/basic_graph_stats.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:12: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools && /usr/bin/cmake -E cmake_link_script CMakeFiles/samtools.dir/link.txt --verbose=1 /usr/bin/ar qc libsamtools.a CMakeFiles/samtools.dir/kstring.c.o CMakeFiles/samtools.dir/bam_aux.c.o CMakeFiles/samtools.dir/bam.c.o CMakeFiles/samtools.dir/bam_import.c.o CMakeFiles/samtools.dir/sam.c.o CMakeFiles/samtools.dir/bam_index.c.o CMakeFiles/samtools.dir/bam_pileup.c.o CMakeFiles/samtools.dir/bam_lpileup.c.o CMakeFiles/samtools.dir/bam_md.c.o CMakeFiles/samtools.dir/razf.c.o CMakeFiles/samtools.dir/faidx.c.o CMakeFiles/samtools.dir/bedidx.c.o CMakeFiles/samtools.dir/bam_sort.c.o CMakeFiles/samtools.dir/sam_header.c.o CMakeFiles/samtools.dir/bam_reheader.c.o CMakeFiles/samtools.dir/kprobaln.c.o CMakeFiles/samtools.dir/bam_cat.c.o /usr/bin/ranlib libsamtools.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target samtools In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ [ 65%] Linking CXX static library libutils.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/cmake -P CMakeFiles/utils.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils && /usr/bin/cmake -E cmake_link_script CMakeFiles/utils.dir/link.txt --verbose=1 /usr/bin/ar qc libutils.a CMakeFiles/utils.dir/memory_limit.cpp.o CMakeFiles/utils.dir/filesystem/copy_file.cpp.o CMakeFiles/utils.dir/filesystem/path_helper.cpp.o CMakeFiles/utils.dir/filesystem/temporary.cpp.o CMakeFiles/utils.dir/filesystem/glob.cpp.o CMakeFiles/utils.dir/logger/logger_impl.cpp.o "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" /usr/bin/ranlib libutils.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target utils [ 65%] Linking CXX static library libllvm-support.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/cmake -P CMakeFiles/llvm-support.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm && /usr/bin/cmake -E cmake_link_script CMakeFiles/llvm-support.dir/link.txt --verbose=1 /usr/bin/ar qc libllvm-support.a "CMakeFiles/llvm-support.dir/APFloat.cpp.o" "CMakeFiles/llvm-support.dir/APInt.cpp.o" "CMakeFiles/llvm-support.dir/Atomic.cpp.o" "CMakeFiles/llvm-support.dir/CrashRecoveryContext.cpp.o" "CMakeFiles/llvm-support.dir/Debug.cpp.o" "CMakeFiles/llvm-support.dir/Errno.cpp.o" "CMakeFiles/llvm-support.dir/Error.cpp.o" "CMakeFiles/llvm-support.dir/ErrorHandling.cpp.o" "CMakeFiles/llvm-support.dir/FoldingSet.cpp.o" "CMakeFiles/llvm-support.dir/FormatVariadic.cpp.o" "CMakeFiles/llvm-support.dir/Hashing.cpp.o" "CMakeFiles/llvm-support.dir/Host.cpp.o" "CMakeFiles/llvm-support.dir/JSON.cpp.o" "CMakeFiles/llvm-support.dir/LEB128.cpp.o" "CMakeFiles/llvm-support.dir/LineIterator.cpp.o" "CMakeFiles/llvm-support.dir/Locale.cpp.o" "CMakeFiles/llvm-support.dir/MD5.cpp.o" "CMakeFiles/llvm-support.dir/ManagedStatic.cpp.o" "CMakeFiles/llvm-support.dir/MemAlloc.cpp.o" "CMakeFiles/llvm-support.dir/MemoryBuffer.cpp.o" "CMakeFiles/llvm-support.dir/NativeFormatting.cpp.o" "CMakeFiles/llvm-support.dir/Path.cpp.o" "CMakeFiles/llvm-support.dir/Process.cpp.o" "CMakeFiles/llvm-support.dir/Program.cpp.o" "CMakeFiles/llvm-support.dir/Regex.cpp.o" "CMakeFiles/llvm-support.dir/Signals.cpp.o" "CMakeFiles/llvm-support.dir/SmallVector.cpp.o" "CMakeFiles/llvm-support.dir/SourceMgr.cpp.o" "CMakeFiles/llvm-support.dir/StringExtras.cpp.o" "CMakeFiles/llvm-support.dir/StringMap.cpp.o" "CMakeFiles/llvm-support.dir/StringRef.cpp.o" "CMakeFiles/llvm-support.dir/StringSaver.cpp.o" "CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o" "CMakeFiles/llvm-support.dir/Threading.cpp.o" "CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o" "CMakeFiles/llvm-support.dir/Twine.cpp.o" "CMakeFiles/llvm-support.dir/Unicode.cpp.o" "CMakeFiles/llvm-support.dir/WithColor.cpp.o" "CMakeFiles/llvm-support.dir/YAMLParser.cpp.o" "CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o" "CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o" "CMakeFiles/llvm-support.dir/raw_ostream.cpp.o" "CMakeFiles/llvm-support.dir/regcomp.c.o" "CMakeFiles/llvm-support.dir/regerror.c.o" "CMakeFiles/llvm-support.dir/regexec.c.o" "CMakeFiles/llvm-support.dir/regfree.c.o" "CMakeFiles/llvm-support.dir/regstrlcpy.c.o" /usr/bin/ranlib libllvm-support.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 65%] Linking CXX static library libmapping_printer.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner && /usr/bin/cmake -P CMakeFiles/mapping_printer.dir/cmake_clean_target.cmake [ 65%] Built target llvm-support make -f common/assembly_graph/CMakeFiles/assembly_graph.dir/build.make common/assembly_graph/CMakeFiles/assembly_graph.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner && /usr/bin/cmake -E cmake_link_script CMakeFiles/mapping_printer.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/assembly_graph/CMakeFiles/assembly_graph.dir/build.make common/assembly_graph/CMakeFiles/assembly_graph.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 66%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path.cpp.o [ 66%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/core/id_distributor.cpp.o [ 66%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/io_support.cpp.o [ 66%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/components/connected_component.cpp.o [ 66%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/bidirectional_path_output.cpp.o [ 67%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/graph_support/coverage_uniformity_analyzer.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/io_support.cpp.o -MF CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/io_support.cpp.o.d -o CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/io_support.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_io/io_support.cpp [ 67%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/__/modules/alignment/edge_index_refiller.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/core/id_distributor.cpp.o -MF CMakeFiles/assembly_graph.dir/core/id_distributor.cpp.o.d -o CMakeFiles/assembly_graph.dir/core/id_distributor.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/id_distributor.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/components/connected_component.cpp.o -MF CMakeFiles/assembly_graph.dir/components/connected_component.cpp.o.d -o CMakeFiles/assembly_graph.dir/components/connected_component.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/components/connected_component.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path.cpp.o -MF CMakeFiles/assembly_graph.dir/paths/bidirectional_path.cpp.o.d -o CMakeFiles/assembly_graph.dir/paths/bidirectional_path.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/bidirectional_path_output.cpp.o -MF CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/bidirectional_path_output.cpp.o.d -o CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/bidirectional_path_output.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_io/bidirectional_path_output.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/graph_support/coverage_uniformity_analyzer.cpp.o -MF CMakeFiles/assembly_graph.dir/graph_support/coverage_uniformity_analyzer.cpp.o.d -o CMakeFiles/assembly_graph.dir/graph_support/coverage_uniformity_analyzer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/coverage_uniformity_analyzer.cpp [ 67%] Building CXX object common/assembly_graph/CMakeFiles/assembly_graph.dir/graph_support/scaff_supplementary.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/__/modules/alignment/edge_index_refiller.cpp.o -MF CMakeFiles/assembly_graph.dir/__/modules/alignment/edge_index_refiller.cpp.o.d -o CMakeFiles/assembly_graph.dir/__/modules/alignment/edge_index_refiller.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index_refiller.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/assembly_graph/CMakeFiles/assembly_graph.dir/graph_support/scaff_supplementary.cpp.o -MF CMakeFiles/assembly_graph.dir/graph_support/scaff_supplementary.cpp.o.d -o CMakeFiles/assembly_graph.dir/graph_support/scaff_supplementary.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/scaff_supplementary.cpp /usr/bin/ar qc libmapping_printer.a CMakeFiles/mapping_printer.dir/mapping_printer.cpp.o /usr/bin/ranlib libmapping_printer.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 67%] Built target mapping_printer In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/coverage_uniformity_analyzer.hpp:7, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/coverage_uniformity_analyzer.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_writer.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_io/bidirectional_path_output.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_io/bidirectional_path_output.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/scaff_supplementary.hpp:3, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/scaff_supplementary.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_container.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_io/io_support.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_io/io_support.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/components/connected_component.hpp:5, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/components/connected_component.cpp:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index_refiller.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 68%] Linking C static library libhmmer.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cmake -P CMakeFiles/hmmer.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer && /usr/bin/cmake -E cmake_link_script CMakeFiles/hmmer.dir/link.txt --verbose=1 In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_info_updater.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_index_builders.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index_refiller.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_position_index.hpp: In instantiation of 'class debruijn_graph::EdgeInfo': /usr/include/c++/14/bits/stl_vector.h:1031:43: required from 'void std::vector<_Tp, _Alloc>::resize(size_type) [with _Tp = debruijn_graph::EdgeInfo; _Alloc = std::allocator >; size_type = long unsigned int]' 1031 | _M_erase_at_end(this->_M_impl._M_start + __new_size); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map.hpp:163:21: required from 'void utils::PerfectHashMap::resize(size_t) [with K = RuntimeSeq<128>; V = debruijn_graph::EdgeInfo; traits = kmers::kmer_index_traits >; StoringType = utils::InvertableStoring; Container = std::vector, std::allocator > >; size_t = long unsigned int]' 163 | data_.resize(sz); | ~~~~~~~~~~~~^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map_builder.hpp:43:21: required from 'void utils::PerfectHashMapBuilder::BuildIndex(utils::PerfectHashMap&, const KMerStorage&, size_t) const [with K = RuntimeSeq<128>; V = debruijn_graph::EdgeInfo; traits = kmers::kmer_index_traits >; StoringType = utils::InvertableStoring; KMerStorage = debruijn_graph::GraphPositionFillingIndexBuilder >::KMerFullGraphStorage; size_t = long unsigned int]' 43 | index.resize(storage.total_kmers()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map_builder.hpp:144:39: required from 'void utils::BuildIndex(PerfectHashMap&, const KMerStorage&, size_t) [with K = RuntimeSeq<128>; V = debruijn_graph::EdgeInfo; traits = kmers::kmer_index_traits >; StoringType = InvertableStoring; KMerStorage = debruijn_graph::GraphPositionFillingIndexBuilder >::KMerFullGraphStorage; size_t = long unsigned int]' 144 | PerfectHashMapBuilder().BuildIndex(index, storage, thread_num); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_index_builders.hpp:249:19: required from 'void debruijn_graph::GraphPositionFillingIndexBuilder::BuildIndexFromGraph(Index&, const debruijn_graph::Graph&) const [with Index = debruijn_graph::KmerFreeEdgeIndex; debruijn_graph::Graph = debruijn_graph::DeBruijnGraph]' 249 | BuildIndex(index, storage, nthreads); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index_refiller.cpp:27:39: required from 'void debruijn_graph::EdgeIndexRefiller::Refill(EdgeIndex&, const debruijn_graph::Graph&) [with EdgeIndex = debruijn_graph::KmerFreeEdgeIndex; debruijn_graph::Graph = debruijn_graph::DeBruijnGraph]' 27 | IndexBuilder().BuildIndexFromGraph(index, g); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index_refiller.cpp:31:64: required from here 31 | void EdgeIndexRefiller::Refill(EdgeIndex &index, const Graph &g); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_position_index.hpp:20:14: warning: ignoring packed attribute because of unpacked non-POD field 'omnigraph::impl::EdgeId debruijn_graph::EdgeInfo::edge_id_' 20 | IdHolder edge_id_; | ^~~~~~~~ /usr/bin/ar qc libhmmer.a CMakeFiles/hmmer.dir/src/build.c.o CMakeFiles/hmmer.dir/src/cachedb.c.o CMakeFiles/hmmer.dir/src/emit.c.o CMakeFiles/hmmer.dir/src/errors.c.o CMakeFiles/hmmer.dir/src/evalues.c.o CMakeFiles/hmmer.dir/src/eweight.c.o CMakeFiles/hmmer.dir/src/generic_decoding.c.o CMakeFiles/hmmer.dir/src/generic_fwdback.c.o CMakeFiles/hmmer.dir/src/generic_fwdback_chk.c.o CMakeFiles/hmmer.dir/src/generic_fwdback_banded.c.o CMakeFiles/hmmer.dir/src/generic_null2.c.o CMakeFiles/hmmer.dir/src/generic_msv.c.o CMakeFiles/hmmer.dir/src/generic_optacc.c.o CMakeFiles/hmmer.dir/src/generic_stotrace.c.o CMakeFiles/hmmer.dir/src/generic_viterbi.c.o CMakeFiles/hmmer.dir/src/generic_vtrace.c.o CMakeFiles/hmmer.dir/src/h2_io.c.o CMakeFiles/hmmer.dir/src/heatmap.c.o CMakeFiles/hmmer.dir/src/hmmlogo.c.o CMakeFiles/hmmer.dir/src/hmmdmstr.c.o CMakeFiles/hmmer.dir/src/hmmdwrkr.c.o CMakeFiles/hmmer.dir/src/hmmdutils.c.o CMakeFiles/hmmer.dir/src/hmmer.c.o CMakeFiles/hmmer.dir/src/logsum.c.o CMakeFiles/hmmer.dir/src/modelconfig.c.o CMakeFiles/hmmer.dir/src/modelstats.c.o CMakeFiles/hmmer.dir/src/mpisupport.c.o CMakeFiles/hmmer.dir/src/seqmodel.c.o CMakeFiles/hmmer.dir/src/tracealign.c.o CMakeFiles/hmmer.dir/src/p7_alidisplay.c.o CMakeFiles/hmmer.dir/src/p7_bg.c.o CMakeFiles/hmmer.dir/src/p7_builder.c.o CMakeFiles/hmmer.dir/src/p7_domaindef.c.o CMakeFiles/hmmer.dir/src/p7_gbands.c.o CMakeFiles/hmmer.dir/src/p7_gmx.c.o CMakeFiles/hmmer.dir/src/p7_gmxb.c.o CMakeFiles/hmmer.dir/src/p7_gmxchk.c.o CMakeFiles/hmmer.dir/src/p7_hmm.c.o CMakeFiles/hmmer.dir/src/p7_hmmcache.c.o CMakeFiles/hmmer.dir/src/p7_hmmfile.c.o CMakeFiles/hmmer.dir/src/p7_hmmwindow.c.o CMakeFiles/hmmer.dir/src/p7_null3.c.o CMakeFiles/hmmer.dir/src/p7_pipeline.c.o CMakeFiles/hmmer.dir/src/p7_prior.c.o CMakeFiles/hmmer.dir/src/p7_profile.c.o CMakeFiles/hmmer.dir/src/p7_spensemble.c.o CMakeFiles/hmmer.dir/src/p7_tophits.c.o CMakeFiles/hmmer.dir/src/p7_trace.c.o CMakeFiles/hmmer.dir/src/p7_scoredata.c.o CMakeFiles/hmmer.dir/src/hmmpgmd2msa.c.o CMakeFiles/hmmer.dir/src/fm_alphabet.c.o CMakeFiles/hmmer.dir/src/fm_general.c.o CMakeFiles/hmmer.dir/src/fm_sse.c.o CMakeFiles/hmmer.dir/src/fm_ssv.c.o CMakeFiles/hmmer.dir/src/impl_sse/decoding.c.o CMakeFiles/hmmer.dir/src/impl_sse/fwdback.c.o CMakeFiles/hmmer.dir/src/impl_sse/io.c.o CMakeFiles/hmmer.dir/src/impl_sse/ssvfilter.c.o CMakeFiles/hmmer.dir/src/impl_sse/msvfilter.c.o CMakeFiles/hmmer.dir/src/impl_sse/null2.c.o CMakeFiles/hmmer.dir/src/impl_sse/optacc.c.o CMakeFiles/hmmer.dir/src/impl_sse/stotrace.c.o CMakeFiles/hmmer.dir/src/impl_sse/vitfilter.c.o CMakeFiles/hmmer.dir/src/impl_sse/p7_omx.c.o CMakeFiles/hmmer.dir/src/impl_sse/p7_oprofile.c.o CMakeFiles/hmmer.dir/src/impl_sse/mpi.c.o /usr/bin/ranlib libhmmer.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 68%] Built target hmmer make -f common/hmm/CMakeFiles/hmmercpp.dir/build.make common/hmm/CMakeFiles/hmmercpp.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/hmm /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/hmm /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/hmm/CMakeFiles/hmmercpp.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/hmm/CMakeFiles/hmmercpp.dir/build.make common/hmm/CMakeFiles/hmmercpp.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 68%] Building CXX object common/hmm/CMakeFiles/hmmercpp.dir/hmmfile.cpp.o [ 68%] Building CXX object common/hmm/CMakeFiles/hmmercpp.dir/hmmmatcher.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/hmm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/hmm/CMakeFiles/hmmercpp.dir/hmmfile.cpp.o -MF CMakeFiles/hmmercpp.dir/hmmfile.cpp.o.d -o CMakeFiles/hmmercpp.dir/hmmfile.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/hmm/hmmfile.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/hmm && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/hmm/CMakeFiles/hmmercpp.dir/hmmmatcher.cpp.o -MF CMakeFiles/hmmercpp.dir/hmmmatcher.cpp.o.d -o CMakeFiles/hmmercpp.dir/hmmmatcher.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/hmm/hmmmatcher.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/hmm/hmmmatcher.cpp: In member function 'P7_PIPELINE* hmmer::HMMMatcher::pipeline_create(const hmmer::hmmer_cfg&, int, int, int, unsigned int)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/hmm/hmmmatcher.cpp:161:34: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 161 | pli->Z = pli->domZ = cfg.Z; | ~~~~^ [ 68%] Linking CXX static library libpaired_info.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info && /usr/bin/cmake -P CMakeFiles/paired_info.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info && /usr/bin/cmake -E cmake_link_script CMakeFiles/paired_info.dir/link.txt --verbose=1 [ 68%] Linking CXX static library libhmmercpp.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/hmm && /usr/bin/cmake -P CMakeFiles/hmmercpp.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/hmm && /usr/bin/cmake -E cmake_link_script CMakeFiles/hmmercpp.dir/link.txt --verbose=1 /usr/bin/ar qc libpaired_info.a CMakeFiles/paired_info.dir/distance_estimation.cpp.o CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o CMakeFiles/paired_info.dir/smoothing_distance_estimation.cpp.o /usr/bin/ranlib libpaired_info.a /usr/bin/ar qc libhmmercpp.a CMakeFiles/hmmercpp.dir/hmmfile.cpp.o CMakeFiles/hmmercpp.dir/hmmmatcher.cpp.o /usr/bin/ranlib libhmmercpp.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 68%] Built target hmmercpp [ 68%] Built target paired_info /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]', inlined from 'T* adt::SmallPODVector::emplace(const_iterator, ArgTypes&& ...) [with ArgTypes = {const omnigraph::de::PointT&}; T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:581:22, inlined from 'std::pair::iterator, bool> adt::flat_set::emplace(First&&, Args&& ...) [with First = const omnigraph::de::PointT&; Args = {}; T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:136:34, inlined from 'std::pair::iterator, bool> adt::flat_set::insert(const value_type&) [with T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:62:79, inlined from 'std::pair, adt::SmallPODVector>::iterator, bool> omnigraph::de::Histogram::insert(const value_type&) [with Point = omnigraph::de::PointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:97:79, inlined from 'void omnigraph::de::Histogram::BinArchiveLoad(Archive&) [with Archive = io::binary::impl::StreamArchiveReader; Point = omnigraph::de::PointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:200:19: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 16 is outside array bounds of 'adt::SmallPODVector >::value_type [1]' {aka 'omnigraph::de::PointT [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void omnigraph::de::Histogram::BinArchiveLoad(Archive&) [with Archive = io::binary::impl::StreamArchiveReader; Point = omnigraph::de::PointT]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:580:20: note: at offset 16 into object 'tmp' of size 16 580 | value_type tmp(std::forward(args)...); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::de::RawPointT; Container = adt::impl::HybridAllocatedStorage, 3>]', inlined from 'T* adt::SmallPODVector::emplace(const_iterator, ArgTypes&& ...) [with ArgTypes = {const omnigraph::de::RawPointT&}; T = omnigraph::de::RawPointT; Container = adt::impl::HybridAllocatedStorage, 3>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:581:22, inlined from 'std::pair::iterator, bool> adt::flat_set::emplace(First&&, Args&& ...) [with First = const omnigraph::de::RawPointT&; Args = {}; T = omnigraph::de::RawPointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:136:34, inlined from 'std::pair::iterator, bool> adt::flat_set::insert(const value_type&) [with T = omnigraph::de::RawPointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:62:79, inlined from 'std::pair, adt::SmallPODVector>::iterator, bool> omnigraph::de::Histogram::insert(const value_type&) [with Point = omnigraph::de::RawPointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:97:79, inlined from 'void omnigraph::de::Histogram::BinArchiveLoad(Archive&) [with Archive = io::binary::impl::StreamArchiveReader; Point = omnigraph::de::RawPointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:200:19: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'adt::SmallPODVector >::value_type [1]' {aka 'omnigraph::de::RawPointT [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void omnigraph::de::Histogram::BinArchiveLoad(Archive&) [with Archive = io::binary::impl::StreamArchiveReader; Point = omnigraph::de::RawPointT]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:580:20: note: at offset 8 into object 'tmp' of size 8 580 | value_type tmp(std::forward(args)...); | ^~~ [ 68%] Linking CXX static library ../../../lib/libgtest.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest && /usr/bin/cmake -P CMakeFiles/gtest.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest && /usr/bin/cmake -E cmake_link_script CMakeFiles/gtest.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libgtest.a "CMakeFiles/gtest.dir/src/gtest-all.cc.o" /usr/bin/ranlib ../../../lib/libgtest.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 68%] Built target gtest make -f ext/googletest/googletest/CMakeFiles/gtest_main.dir/build.make ext/googletest/googletest/CMakeFiles/gtest_main.dir/depend make -f ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build.make ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest/CMakeFiles/gtest_main.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/teamcity_gtest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/googletest/googletest/CMakeFiles/gtest_main.dir/build.make ext/googletest/googletest/CMakeFiles/gtest_main.dir/build make -f ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build.make ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 68%] Building CXX object ext/googletest/googletest/CMakeFiles/gtest_main.dir/src/gtest_main.cc.o [ 68%] Building CXX object ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/teamcity_messages.cpp.o [ 68%] Building CXX object ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/teamcity_gtest.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/teamcity_messages.cpp.o -MF CMakeFiles/teamcity_gtest.dir/teamcity_messages.cpp.o.d -o CMakeFiles/teamcity_gtest.dir/teamcity_messages.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/teamcity_gtest/teamcity_messages.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=c++14 -Wall -Wshadow -Werror -Wno-error=dangling-else -DGTEST_HAS_PTHREAD=1 -fexceptions -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wno-deprecated -O2 -MD -MT ext/googletest/googletest/CMakeFiles/gtest_main.dir/src/gtest_main.cc.o -MF CMakeFiles/gtest_main.dir/src/gtest_main.cc.o.d -o CMakeFiles/gtest_main.dir/src/gtest_main.cc.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/src/gtest_main.cc cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -MD -MT ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/teamcity_gtest.cpp.o -MF CMakeFiles/teamcity_gtest.dir/teamcity_gtest.cpp.o.d -o CMakeFiles/teamcity_gtest.dir/teamcity_gtest.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/teamcity_gtest/teamcity_gtest.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/binary.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/io_base.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:9: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ [ 68%] Linking CXX static library libConsensusCore.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/cmake -P CMakeFiles/ConsensusCore.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/ConsensusCore && /usr/bin/cmake -E cmake_link_script CMakeFiles/ConsensusCore.dir/link.txt --verbose=1 [ 68%] Linking CXX static library ../../../lib/libgtest_main.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest && /usr/bin/cmake -P CMakeFiles/gtest_main.dir/cmake_clean_target.cmake /usr/bin/ar qc libConsensusCore.a CMakeFiles/ConsensusCore.dir/AffineAlignment.cpp.o CMakeFiles/ConsensusCore.dir/Coverage.cpp.o CMakeFiles/ConsensusCore.dir/Mutation.cpp.o CMakeFiles/ConsensusCore.dir/PairwiseAlignment.cpp.o CMakeFiles/ConsensusCore.dir/Sequence.cpp.o CMakeFiles/ConsensusCore.dir/Utils.cpp.o CMakeFiles/ConsensusCore.dir/Version.cpp.o CMakeFiles/ConsensusCore.dir/Matrix/DenseMatrix.cpp.o CMakeFiles/ConsensusCore.dir/Matrix/SparseMatrix.cpp.o CMakeFiles/ConsensusCore.dir/Poa/PoaConfig.cpp.o CMakeFiles/ConsensusCore.dir/Poa/PoaConsensus.cpp.o CMakeFiles/ConsensusCore.dir/Poa/PoaGraph.cpp.o /usr/bin/ranlib libConsensusCore.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest && /usr/bin/cmake -E cmake_link_script CMakeFiles/gtest_main.dir/link.txt --verbose=1 [ 68%] Built target ConsensusCore make -f projects/spades/CMakeFiles/spades-stages.dir/build.make projects/spades/CMakeFiles/spades-stages.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades/CMakeFiles/spades-stages.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/spades/CMakeFiles/spades-stages.dir/build.make projects/spades/CMakeFiles/spades-stages.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 68%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/gap_closer.cpp.o [ 68%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/repeat_resolving.cpp.o [ 68%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/mismatch_correction.cpp.o [ 68%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/pair_info_count.cpp.o [ 69%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/distance_estimation.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/mismatch_correction.cpp.o -MF CMakeFiles/spades-stages.dir/mismatch_correction.cpp.o.d -o CMakeFiles/spades-stages.dir/mismatch_correction.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/mismatch_correction.cpp [ 69%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/chromosome_removal.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/gap_closer.cpp.o -MF CMakeFiles/spades-stages.dir/gap_closer.cpp.o.d -o CMakeFiles/spades-stages.dir/gap_closer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/gap_closer.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/pair_info_count.cpp.o -MF CMakeFiles/spades-stages.dir/pair_info_count.cpp.o.d -o CMakeFiles/spades-stages.dir/pair_info_count.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pair_info_count.cpp [ 69%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/hybrid_aligning.cpp.o [ 69%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/contig_output_stage.cpp.o [ 70%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/extract_domains.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/distance_estimation.cpp.o -MF CMakeFiles/spades-stages.dir/distance_estimation.cpp.o.d -o CMakeFiles/spades-stages.dir/distance_estimation.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/distance_estimation.cpp [ 70%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/second_phase_setup.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/repeat_resolving.cpp.o -MF CMakeFiles/spades-stages.dir/repeat_resolving.cpp.o.d -o CMakeFiles/spades-stages.dir/repeat_resolving.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/repeat_resolving.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/chromosome_removal.cpp.o -MF CMakeFiles/spades-stages.dir/chromosome_removal.cpp.o.d -o CMakeFiles/spades-stages.dir/chromosome_removal.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/chromosome_removal.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/contig_output_stage.cpp.o -MF CMakeFiles/spades-stages.dir/contig_output_stage.cpp.o.d -o CMakeFiles/spades-stages.dir/contig_output_stage.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/contig_output_stage.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/second_phase_setup.cpp.o -MF CMakeFiles/spades-stages.dir/second_phase_setup.cpp.o.d -o CMakeFiles/spades-stages.dir/second_phase_setup.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/second_phase_setup.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/hybrid_aligning.cpp.o -MF CMakeFiles/spades-stages.dir/hybrid_aligning.cpp.o.d -o CMakeFiles/spades-stages.dir/hybrid_aligning.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_aligning.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/extract_domains.cpp.o -MF CMakeFiles/spades-stages.dir/extract_domains.cpp.o.d -o CMakeFiles/spades-stages.dir/extract_domains.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/extract_domains.cpp [ 70%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/domain_graph_construction.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/domain_graph_construction.cpp.o -MF CMakeFiles/spades-stages.dir/domain_graph_construction.cpp.o.d -o CMakeFiles/spades-stages.dir/domain_graph_construction.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph_construction.cpp [ 70%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/domain_matcher.cpp.o [ 72%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/load_graph.cpp.o [ 72%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/restricted_edges_filling.cpp.o [ 72%] Building CXX object projects/spades/CMakeFiles/spades-stages.dir/domain_graph.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/domain_matcher.cpp.o -MF CMakeFiles/spades-stages.dir/domain_matcher.cpp.o.d -o CMakeFiles/spades-stages.dir/domain_matcher.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_matcher.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/restricted_edges_filling.cpp.o -MF CMakeFiles/spades-stages.dir/restricted_edges_filling.cpp.o.d -o CMakeFiles/spades-stages.dir/restricted_edges_filling.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/restricted_edges_filling.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/load_graph.cpp.o -MF CMakeFiles/spades-stages.dir/load_graph.cpp.o.d -o CMakeFiles/spades-stages.dir/load_graph.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/load_graph.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-stages.dir/domain_graph.cpp.o -MF CMakeFiles/spades-stages.dir/domain_graph.cpp.o.d -o CMakeFiles/spades-stages.dir/domain_graph.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph.cpp /usr/bin/ar qc ../../../lib/libgtest_main.a CMakeFiles/gtest_main.dir/src/gtest_main.cc.o /usr/bin/ranlib ../../../lib/libgtest_main.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 72%] Built target gtest_main [ 72%] Linking CXX static library libteamcity_gtest.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest && /usr/bin/cmake -P CMakeFiles/teamcity_gtest.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/teamcity_gtest.dir/link.txt --verbose=1 /usr/bin/ar qc libteamcity_gtest.a CMakeFiles/teamcity_gtest.dir/teamcity_gtest.cpp.o CMakeFiles/teamcity_gtest.dir/teamcity_messages.cpp.o /usr/bin/ranlib libteamcity_gtest.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 72%] Built target teamcity_gtest In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/second_phase_setup.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/chromosome_remover.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/chromosome_removal.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/contig_output_stage.cpp:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_reader.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/load_graph.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/second_phase_setup.cpp: In member function 'virtual void debruijn_graph::SecondPhaseSetup::run(debruijn_graph::GraphPack&, const char*)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/second_phase_setup.cpp:27:9: warning: unused variable 'code' [-Wunused-variable] 27 | int code = rename(old_pe_contigs_filename.c_str(), new_pe_contigs_filename.c_str()); | ^~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/construction_helper.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph_construction.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_matcher.cpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/mismatch_correction.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/restricted_edges_filling.cpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/distance_estimation.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/distance_estimation.cpp:14: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/repeat_resolving.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 72%] Linking CXX static library libassembly_graph.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/cmake -P CMakeFiles/assembly_graph.dir/cmake_clean_target.cmake In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/gap_closer.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph && /usr/bin/cmake -E cmake_link_script CMakeFiles/assembly_graph.dir/link.txt --verbose=1 In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/bwa_sequence_mapper.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_aligning.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper_notifier.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/is_counter.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pair_info_count.cpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_matcher.cpp: In function 'void nrps::MatchContigsInternal(hmmer::HMMMatcher&, const path_extend::BidirectionalPath&, const std::string&, const std::string&, const std::string&, ContigAlnInfo&, io::OFastaReadStream&, size_t, bool)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_matcher.cpp:61:48: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 61 | if (seqpos2.second - seqpos2.first < model_length / 10) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/bin/ar qc libassembly_graph.a CMakeFiles/assembly_graph.dir/core/id_distributor.cpp.o CMakeFiles/assembly_graph.dir/components/connected_component.cpp.o CMakeFiles/assembly_graph.dir/paths/bidirectional_path.cpp.o CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/io_support.cpp.o CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/bidirectional_path_output.cpp.o CMakeFiles/assembly_graph.dir/graph_support/scaff_supplementary.cpp.o CMakeFiles/assembly_graph.dir/graph_support/coverage_uniformity_analyzer.cpp.o CMakeFiles/assembly_graph.dir/__/modules/alignment/edge_index_refiller.cpp.o /usr/bin/ranlib libassembly_graph.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 72%] Built target assembly_graph make -f common/modules/path_extend/CMakeFiles/path_extend.dir/build.make common/modules/path_extend/CMakeFiles/path_extend.dir/depend make -f common/modules/CMakeFiles/modules.dir/build.make common/modules/CMakeFiles/modules.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/path_extend/CMakeFiles/path_extend.dir/build.make common/modules/path_extend/CMakeFiles/path_extend.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/CMakeFiles/modules.dir/build.make common/modules/CMakeFiles/modules.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_aligning.cpp:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp: In member function 'void debruijn_graph::gap_closing::MultiGapJoiner::UpdateGap(debruijn_graph::gap_closing::GapDescription&, debruijn_graph::gap_closing::EdgePair, debruijn_graph::gap_closing::EdgePair) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:457:14: warning: unused variable 'u1' [-Wunused-variable] 457 | bool u1 = UpdateLeft(gap, split_orig, split_res); | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:458:14: warning: unused variable 'u2' [-Wunused-variable] 458 | bool u2 = UpdateRight(gap, split_orig, split_res); | ^~ [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/path_extenders.cpp.o [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/gap_analyzer.cpp.o [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/pe_config_struct.cpp.o [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/loop_traverser.cpp.o [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/launch_support.cpp.o [ 73%] Building CXX object common/modules/CMakeFiles/modules.dir/chromosome_remover.cpp.o [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/overlap_remover.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/path_extenders.cpp.o -MF CMakeFiles/path_extend.dir/path_extenders.cpp.o.d -o CMakeFiles/path_extend.dir/path_extenders.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/path_extenders.cpp [ 73%] Building CXX object common/modules/CMakeFiles/modules.dir/genome_consistance_checker.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/pe_config_struct.cpp.o -MF CMakeFiles/path_extend.dir/pe_config_struct.cpp.o.d -o CMakeFiles/path_extend.dir/pe_config_struct.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pe_config_struct.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/chromosome_remover.cpp.o -MF CMakeFiles/modules.dir/chromosome_remover.cpp.o.d -o CMakeFiles/modules.dir/chromosome_remover.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/chromosome_remover.cpp [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/loop_traverser.cpp.o -MF CMakeFiles/path_extend.dir/loop_traverser.cpp.o.d -o CMakeFiles/path_extend.dir/loop_traverser.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/loop_traverser.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/gap_analyzer.cpp.o -MF CMakeFiles/path_extend.dir/gap_analyzer.cpp.o.d -o CMakeFiles/path_extend.dir/gap_analyzer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/gap_analyzer.cpp [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/extenders_logic.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/genome_consistance_checker.cpp.o -MF CMakeFiles/modules.dir/genome_consistance_checker.cpp.o.d -o CMakeFiles/modules.dir/genome_consistance_checker.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/genome_consistance_checker.cpp [ 73%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/loop_detector.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/overlap_remover.cpp.o -MF CMakeFiles/path_extend.dir/overlap_remover.cpp.o.d -o CMakeFiles/path_extend.dir/overlap_remover.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/overlap_remover.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/launch_support.cpp.o -MF CMakeFiles/path_extend.dir/pipeline/launch_support.cpp.o.d -o CMakeFiles/path_extend.dir/pipeline/launch_support.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launch_support.cpp [ 74%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/launcher.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/extenders_logic.cpp.o -MF CMakeFiles/path_extend.dir/pipeline/extenders_logic.cpp.o.d -o CMakeFiles/path_extend.dir/pipeline/extenders_logic.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/loop_detector.cpp.o -MF CMakeFiles/path_extend.dir/loop_detector.cpp.o.d -o CMakeFiles/path_extend.dir/loop_detector.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/loop_detector.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph.cpp.o -MF CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph.cpp.o.d -o CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph.cpp [ 75%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/bwa_index.cpp.o [ 75%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/gap_info.cpp.o [ 76%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/long_read_mapper.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/launcher.cpp.o -MF CMakeFiles/path_extend.dir/pipeline/launcher.cpp.o.d -o CMakeFiles/path_extend.dir/pipeline/launcher.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launcher.cpp [ 76%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/extension_chooser2015.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/bwa_index.cpp.o -MF CMakeFiles/modules.dir/alignment/bwa_index.cpp.o.d -o CMakeFiles/modules.dir/alignment/bwa_index.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/bwa_index.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/extension_chooser2015.cpp.o -MF CMakeFiles/path_extend.dir/scaffolder2015/extension_chooser2015.cpp.o.d -o CMakeFiles/path_extend.dir/scaffolder2015/extension_chooser2015.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/extension_chooser2015.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/long_read_mapper.cpp.o -MF CMakeFiles/modules.dir/alignment/long_read_mapper.cpp.o.d -o CMakeFiles/modules.dir/alignment/long_read_mapper.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/long_read_mapper.cpp [ 75%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/pe_resolver.cpp.o [ 76%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_visualizer.cpp.o [ 75%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/sequence_mapper.cpp.o [ 76%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_constructor.cpp.o [ 76%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/sequence_mapper_notifier.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/gap_info.cpp.o -MF CMakeFiles/modules.dir/alignment/gap_info.cpp.o.d -o CMakeFiles/modules.dir/alignment/gap_info.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/gap_info.cpp [ 76%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/connection_condition2015.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/sequence_mapper.cpp.o -MF CMakeFiles/modules.dir/alignment/sequence_mapper.cpp.o.d -o CMakeFiles/modules.dir/alignment/sequence_mapper.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/sequence_mapper_notifier.cpp.o -MF CMakeFiles/modules.dir/alignment/sequence_mapper_notifier.cpp.o.d -o CMakeFiles/modules.dir/alignment/sequence_mapper_notifier.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper_notifier.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/pe_resolver.cpp.o -MF CMakeFiles/path_extend.dir/pe_resolver.cpp.o.d -o CMakeFiles/path_extend.dir/pe_resolver.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pe_resolver.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_constructor.cpp.o -MF CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_constructor.cpp.o.d -o CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_constructor.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph_constructor.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_visualizer.cpp.o -MF CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_visualizer.cpp.o.d -o CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_visualizer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph_visualizer.cpp [ 77%] Building CXX object common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/path_polisher.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/connection_condition2015.cpp.o -MF CMakeFiles/path_extend.dir/scaffolder2015/connection_condition2015.cpp.o.d -o CMakeFiles/path_extend.dir/scaffolder2015/connection_condition2015.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/connection_condition2015.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/path_polisher.cpp.o -MF CMakeFiles/path_extend.dir/scaffolder2015/path_polisher.cpp.o.d -o CMakeFiles/path_extend.dir/scaffolder2015/path_polisher.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/path_polisher.cpp [ 77%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/pacbio/gap_dijkstra.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/pacbio/gap_dijkstra.cpp.o -MF CMakeFiles/modules.dir/alignment/pacbio/gap_dijkstra.cpp.o.d -o CMakeFiles/modules.dir/alignment/pacbio/gap_dijkstra.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_dijkstra.cpp [ 77%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/pacbio/gap_filler.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/pacbio/gap_filler.cpp.o -MF CMakeFiles/modules.dir/alignment/pacbio/gap_filler.cpp.o.d -o CMakeFiles/modules.dir/alignment/pacbio/gap_filler.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_filler.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp: In member function 'debruijn_graph::gap_closing::GapDescription debruijn_graph::gap_closing::HybridGapCloser::ConstructConsensus(gap_info_it, gap_info_it) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:630:16: warning: unused variable 'cur_len' [-Wunused-variable] 630 | size_t cur_len = end_it - start_it; | ^~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/split_path_constructor.hpp:17, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/pair_info_improver.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/distance_estimation.cpp:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/path_utils.hpp: In instantiation of 'std::vector debruijn_graph::GetCommonPathsEnd(const Graph&, typename Graph::EdgeId, typename Graph::EdgeId, size_t, size_t, typename omnigraph::DijkstraHelper::BoundedDijkstra&) [with Graph = DeBruijnGraph; typename Graph::EdgeId = omnigraph::impl::EdgeId; typename Graph::EdgeId = omnigraph::impl::EdgeId; typename Graph::EdgeId = omnigraph::impl::EdgeId; size_t = long unsigned int; typename omnigraph::DijkstraHelper::BoundedDijkstra = omnigraph::Dijkstra, omnigraph::BoundProcessChecker, omnigraph::BoundPutChecker, omnigraph::ForwardNeighbourIteratorFactory, long unsigned int>, long unsigned int>]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/split_path_constructor.hpp:103:64: required from 'std::vector > debruijn_graph::SplitPathConstructor::ConvertPIToSplitPaths(EdgeId, omnigraph::de::PairedInfoIndexT&, double, double) const [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId; omnigraph::de::PairedInfoIndexT = omnigraph::de::PairedIndex]' 103 | std::vector common_part = GetCommonPathsEnd(graph_, cur_edge, cur_info.second, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 | (size_t) (cur_info.d() - cur_info.var()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 | (size_t) (cur_info.d() + cur_info.var()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 | dijkstra); | ~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/pair_info_improver.hpp:230:55: required from 'size_t debruijn_graph::PairInfoImprover::FillMissing(unsigned int) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 230 | auto paths = spc.ConvertPIToSplitPaths(*e, index_, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 231 | lib_.data().mean_insert_size, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 | lib_.data().insert_size_deviation); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/pair_info_improver.hpp:102:37: required from 'void debruijn_graph::PairInfoImprover::CorrectPairedInfo(unsigned int) [with Graph = debruijn_graph::DeBruijnGraph]' 102 | missing_paired_info_count = FillMissing(nthreads); | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/pair_info_improver.hpp:93:9: required from 'void debruijn_graph::PairInfoImprover::ImprovePairedInfo(unsigned int) [with Graph = debruijn_graph::DeBruijnGraph]' 93 | CorrectPairedInfo(num_threads); | ^~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/distance_estimation.cpp:165:31: required from here 165 | improver.ImprovePairedInfo((unsigned) config.max_threads); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/path_utils.hpp:28:20: warning: unused parameter 'min_dist' [-Wunused-parameter] 28 | size_t min_dist, | ~~~~~~~^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pair_info_count.cpp: In function 'bool debruijn_graph::{anonymous}::CollectLibInformation(const debruijn_graph::GraphPack&, size_t&, size_t, size_t)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pair_info_count.cpp:235:42: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 235 | if (data.median_insert_size < gp.k() + 2) | ~~~~~~~^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph_construction.cpp: In member function 'std::pair debruijn_graph::DomainGraphConstructor::FindMappingToPath(const path_extend::BidirectionalPath&, const omnigraph::MappingPath&, std::vector >&) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph_construction.cpp:216:21: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 216 | for (;index != res.first; ++index) { | ~~~~~~^~~~~~~~~~~~ [ 79%] Building CXX object common/modules/CMakeFiles/modules.dir/alignment/pacbio/g_aligner.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/modules/CMakeFiles/modules.dir/alignment/pacbio/g_aligner.cpp.o -MF CMakeFiles/modules.dir/alignment/pacbio/g_aligner.cpp.o.d -o CMakeFiles/modules.dir/alignment/pacbio/g_aligner.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph_construction.cpp: In member function 'void debruijn_graph::DomainGraphConstructor::ConstructStrongEdgesInternal(debruijn_graph::VertexId, const path_extend::BidirectionalPath&, std::map, std::vector > > >, PairComparator> >&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/domain_graph_construction.cpp:243:34: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] 243 | if (coords.second + 5000 > path.Length()) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 79%] Linking CXX static library libbinary_io.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/binary && /usr/bin/cmake -P CMakeFiles/binary_io.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/binary && /usr/bin/cmake -E cmake_link_script CMakeFiles/binary_io.dir/link.txt --verbose=1 In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/bin/ar qc libbinary_io.a CMakeFiles/binary_io.dir/graph_pack.cpp.o CMakeFiles/binary_io.dir/genomic_info.cpp.o /usr/bin/ranlib libbinary_io.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 79%] Built target binary_io make -f common/io/CMakeFiles/input.dir/build.make common/io/CMakeFiles/input.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/io/CMakeFiles/input.dir/build.make common/io/CMakeFiles/input.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 79%] Building CXX object common/io/CMakeFiles/input.dir/reads/paired_readers.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/reads/paired_readers.cpp.o -MF CMakeFiles/input.dir/reads/paired_readers.cpp.o.d -o CMakeFiles/input.dir/reads/paired_readers.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/paired_readers.cpp [ 79%] Building CXX object common/io/CMakeFiles/input.dir/reads/binary_converter.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/reads/binary_converter.cpp.o -MF CMakeFiles/input.dir/reads/binary_converter.cpp.o.d -o CMakeFiles/input.dir/reads/binary_converter.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/binary_converter.cpp [ 79%] Building CXX object common/io/CMakeFiles/input.dir/reads/parser.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/reads/parser.cpp.o -MF CMakeFiles/input.dir/reads/parser.cpp.o.d -o CMakeFiles/input.dir/reads/parser.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/parser.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/loop_traverser.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/loop_traverser.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph.hpp:7, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/split_path_constructor.hpp:20: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/scaff_supplementary.hpp:3, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/connection_condition2015.hpp:3, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/connection_condition2015.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/bwa_index.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/bwa_index.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/weight_counter.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/extension_chooser.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/path_extender.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/path_extenders.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/weight_counter.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/extension_chooser.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/path_extender.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.cpp:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/gap_analyzer.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/gap_analyzer.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pe_utils.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/loop_detector.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/overlap_remover.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/overlap_remover.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/ideal_pair_info.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/paired_library.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launch_support.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launch_support.cpp:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pe_resolver.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pe_resolver.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph.hpp:7, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph_constructor.hpp:7, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph_constructor.cpp:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 80%] Building CXX object common/io/CMakeFiles/input.dir/reads/binary_streams.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/reads/binary_streams.cpp.o -MF CMakeFiles/input.dir/reads/binary_streams.cpp.o.d -o CMakeFiles/input.dir/reads/binary_streams.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/binary_streams.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_dijkstra.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_dijkstra.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph.hpp:7, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph_visualizer.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/scaffold_graph_visualizer.cpp:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/gap_closer.cpp:362:64: required from here 362 | for (auto edge = g_.SmartEdgeBegin(); !edge.IsEnd(); ++edge) { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/weight_counter.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/extension_chooser.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/extension_chooser2015.hpp:6, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/extension_chooser2015.cpp:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper_notifier.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/long_read_mapper.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/long_read_mapper.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/path_polisher.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/path_polisher.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/bwa_index.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_filler.hpp:14, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/gap_filler.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/long_read_mapper.cpp: In member function 'void debruijn_graph::{anonymous}::GappedPathExtractorForTrustedContigs::RemoveMappingsWithBadTotalLength(omnigraph::MappingPath&) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/long_read_mapper.cpp:277:25: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 277 | if (bad_mapping_pos == -1) | ~~~~~~~~~~~~~~~~^~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper_notifier.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper_notifier.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 80%] Building CXX object common/io/CMakeFiles/input.dir/reads/io_helper.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/reads/io_helper.cpp.o -MF CMakeFiles/input.dir/reads/io_helper.cpp.o.d -o CMakeFiles/input.dir/reads/io_helper.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/io_helper.cpp [ 80%] Building CXX object common/io/CMakeFiles/input.dir/dataset_support/read_converter.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/dataset_support/read_converter.cpp.o -MF CMakeFiles/input.dir/dataset_support/read_converter.cpp.o.d -o CMakeFiles/input.dir/dataset_support/read_converter.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/dataset_support/read_converter.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/compressor.hpp:123:26: required from 'size_t omnigraph::CompressAllVertices(Graph&, size_t, bool) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 123 | return compressor.Run(); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/gap_closer.cpp:394:46: required from here 394 | omnigraph::CompressAllVertices(g_); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/visualization/position_filler.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/genome_consistance_checker.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/genome_consistance_checker.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/connection_condition2015.cpp: In member function 'virtual path_extend::Connections path_extend::LongReadsLibConnectionCondition::ConnectedWith(path_extend::EdgeId, const path_extend::ScaffoldingUniqueEdgeStorage&) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/connection_condition2015.cpp:111:28: warning: conversion from 'long unsigned int' to 'double' may change value [-Wconversion] 111 | if (iter->second < min_read_count_) { | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/bwa_sequence_mapper.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/ideal_pair_info.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/paired_library.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launch_support.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launcher.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launcher.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' [ 80%] Building CXX object common/io/CMakeFiles/input.dir/dataset_support/dataset_readers.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/dataset_support/dataset_readers.cpp.o -MF CMakeFiles/input.dir/dataset_support/dataset_readers.cpp.o.d -o CMakeFiles/input.dir/dataset_support/dataset_readers.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/dataset_support/dataset_readers.cpp [ 80%] Building CXX object common/io/CMakeFiles/input.dir/sam/read.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/sam/read.cpp.o -MF CMakeFiles/input.dir/sam/read.cpp.o.d -o CMakeFiles/input.dir/sam/read.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/sam/read.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 81%] Building CXX object common/io/CMakeFiles/input.dir/sam/sam_reader.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/io/CMakeFiles/input.dir/sam/sam_reader.cpp.o -MF CMakeFiles/input.dir/sam/sam_reader.cpp.o.d -o CMakeFiles/input.dir/sam/sam_reader.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/sam/sam_reader.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_info_updater.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_multi_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/pacbio/g_aligner.hpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/compressor.hpp:123:26: required from 'size_t omnigraph::CompressAllVertices(Graph&, size_t, bool) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 123 | return compressor.Run(); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:722:28: required from here 722 | CompressAllVertices(g_, /*chunk_cnt*/100); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/chromosome_remover.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/chromosome_remover.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/extension_chooser2015.cpp: In member function 'path_extend::ExtensionChooser::EdgeContainer path_extend::ExtensionChooser2015::FindNextUniqueEdge(path_extend::EdgeId) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/scaffolder2015/extension_chooser2015.cpp:29:19: warning: conversion from 'long unsigned int' to 'double' may change value [-Wconversion] 29 | if (sum < absolute_weight_threshold_) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_set_params, std::allocator, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_set_params, std::allocator, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node, std::allocator, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/bits/alloc_traits.h:39, from /usr/include/c++/14/ext/alloc_traits.h:34, from /usr/include/c++/14/bits/hashtable_policy.h:39, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/pack.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/stage.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/mismatch_correction.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/mismatch_correction.cpp:7: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_set_params, std::allocator, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_set_params, std::allocator, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_set_params, std::allocator, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_set_params, std::allocator, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node, std::allocator, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_set_params, std::allocator, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_set_params, std::allocator, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:15: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31, inlined from 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:586:39: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:580:12: note: at offset 8 into object 'e' of size 8 580 | EdgeId AddSingleEdge(VertexId v1, VertexId v2, | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:15: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_aligning.cpp:13: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/dataset_support/read_converter.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]', inlined from 'T* adt::SmallPODVector::emplace(const_iterator, ArgTypes&& ...) [with ArgTypes = {const omnigraph::de::PointT&}; T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:581:22, inlined from 'std::pair::iterator, bool> adt::flat_set::emplace(First&&, Args&& ...) [with First = const omnigraph::de::PointT&; Args = {}; T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:136:34, inlined from 'std::pair::iterator, bool> adt::flat_set::insert(const value_type&) [with T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:62:79, inlined from 'std::pair, adt::SmallPODVector>::iterator, bool> omnigraph::de::Histogram::insert(const value_type&) [with Point = omnigraph::de::PointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:97:79, inlined from 'void omnigraph::de::PairInfoFilter::Filter(omnigraph::de::PairedInfoIndexT&) [with Graph = debruijn_graph::DeBruijnGraph]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/pair_info_filters.hpp:257:32: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 16 is outside array bounds of 'adt::SmallPODVector >::value_type [1]' {aka 'omnigraph::de::PointT [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void omnigraph::de::PairInfoFilter::Filter(omnigraph::de::PairedInfoIndexT&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:580:20: note: at offset 16 into object 'tmp' of size 16 580 | value_type tmp(std::forward(args)...); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_set.h:27, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:10: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/streambuf:43, from /usr/include/c++/14/bits/streambuf_iterator.h:35, from /usr/include/c++/14/iterator:66, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/boost/iterator.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/boost/iterator/iterator_facade.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/chained_iterator.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/library.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/distance_estimation.cpp:8: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp: In static member function 'static int path_extend::ExtenderTriplet::GetPriority(io::LibraryType)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:34:13: note: in expansion of macro 'SET_PRIORITY' 34 | SET_PRIORITY(LibraryType::SangerReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:35:13: note: in expansion of macro 'SET_PRIORITY' 35 | SET_PRIORITY(LibraryType::PacBioReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:35:13: note: in expansion of macro 'SET_PRIORITY' 35 | SET_PRIORITY(LibraryType::PacBioReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:36:13: note: in expansion of macro 'SET_PRIORITY' 36 | SET_PRIORITY(LibraryType::NanoporeReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:36:13: note: in expansion of macro 'SET_PRIORITY' 36 | SET_PRIORITY(LibraryType::NanoporeReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:37:13: note: in expansion of macro 'SET_PRIORITY' 37 | SET_PRIORITY(LibraryType::TrustedContigs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:37:13: note: in expansion of macro 'SET_PRIORITY' 37 | SET_PRIORITY(LibraryType::TrustedContigs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:38:13: note: in expansion of macro 'SET_PRIORITY' 38 | SET_PRIORITY(LibraryType::SingleReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:38:13: note: in expansion of macro 'SET_PRIORITY' 38 | SET_PRIORITY(LibraryType::SingleReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:39:13: note: in expansion of macro 'SET_PRIORITY' 39 | SET_PRIORITY(LibraryType::PairedEnd); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:39:13: note: in expansion of macro 'SET_PRIORITY' 39 | SET_PRIORITY(LibraryType::PairedEnd); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:40:13: note: in expansion of macro 'SET_PRIORITY' 40 | SET_PRIORITY(LibraryType::HQMatePairs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:40:13: note: in expansion of macro 'SET_PRIORITY' 40 | SET_PRIORITY(LibraryType::HQMatePairs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:41:13: note: in expansion of macro 'SET_PRIORITY' 41 | SET_PRIORITY(LibraryType::MatePairs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:41:13: note: in expansion of macro 'SET_PRIORITY' 41 | SET_PRIORITY(LibraryType::MatePairs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:42:13: note: in expansion of macro 'SET_PRIORITY' 42 | SET_PRIORITY(LibraryType::TSLReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:42:13: note: in expansion of macro 'SET_PRIORITY' 42 | SET_PRIORITY(LibraryType::TSLReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:43:13: note: in expansion of macro 'SET_PRIORITY' 43 | SET_PRIORITY(LibraryType::PathExtendContigs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:43:13: note: in expansion of macro 'SET_PRIORITY' 43 | SET_PRIORITY(LibraryType::PathExtendContigs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:44:13: note: in expansion of macro 'SET_PRIORITY' 44 | SET_PRIORITY(LibraryType::UntrustedContigs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:44:13: note: in expansion of macro 'SET_PRIORITY' 44 | SET_PRIORITY(LibraryType::UntrustedContigs); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:45:13: note: in expansion of macro 'SET_PRIORITY' 45 | SET_PRIORITY(LibraryType::FLRNAReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:41: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:45:13: note: in expansion of macro 'SET_PRIORITY' 45 | SET_PRIORITY(LibraryType::FLRNAReads); | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:28:33: note: here 28 | #define SET_PRIORITY(o) case o: --priority | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/extenders_logic.hpp:46:13: note: in expansion of macro 'SET_PRIORITY' 46 | SET_PRIORITY(LibraryType::AssemblyGraph); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/bits/alloc_traits.h:39, from /usr/include/c++/14/ext/alloc_traits.h:34, from /usr/include/c++/14/bits/hashtable_policy.h:39, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/pack.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/stage.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pair_info_count.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pair_info_count.cpp:8: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/chromosome_remover.cpp:34:58: required from here 34 | for (auto it = g.SmartVertexBegin(); ! it.IsEnd(); ++it) { | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/chromosome_remover.cpp:131:64: required from here 131 | for (auto iter = graph.SmartEdgeBegin(); ! iter.IsEnd(); ++iter) { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = nrps::DomainGraphDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31, inlined from 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = nrps::DomainGraphDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:586:39: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = nrps::DomainGraphDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:580:12: note: at offset 8 into object 'e' of size 8 580 | EdgeId AddSingleEdge(VertexId v1, VertexId v2, | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/chromosome_remover.cpp:14: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp: In instantiation of 'void omnigraph::de::PairedIndexHandler::HandleMerge(const std::vector&, EdgeId) [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits; Container = omnigraph::de::safe_btree_map; typename Graph::EdgeId = omnigraph::impl::EdgeId; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:597:18: required from here 597 | virtual void HandleMerge(const std::vector &old_edges, EdgeId new_edge) override { | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:638:53: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'float' may change value [-Wconversion] 638 | if (paired_index_.graph().length(new_edge) > point.d && new_edge != next) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/path_visualizer.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pipeline/launcher.cpp:14: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]', inlined from 'T* adt::SmallPODVector::emplace(const_iterator, ArgTypes&& ...) [with ArgTypes = {const omnigraph::de::PointT&}; T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:581:22, inlined from 'std::pair::iterator, bool> adt::flat_set::emplace(First&&, Args&& ...) [with First = const omnigraph::de::PointT&; Args = {}; T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:136:34, inlined from 'std::pair::iterator, bool> adt::flat_set::insert(const value_type&) [with T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:62:79, inlined from 'std::pair, adt::SmallPODVector>::iterator, bool> omnigraph::de::Histogram::insert(const value_type&) [with Point = omnigraph::de::PointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:97:79, inlined from 'typename std::enable_if<(! omnigraph::de::Histogram::can_merge::value), long unsigned int>::type omnigraph::de::Histogram::merge_point(const U&) [with U = omnigraph::de::PointT; Point = omnigraph::de::PointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:160:29, inlined from 'std::pair, G, Traits>::InnerPoint> >::pointer, long unsigned int> omnigraph::de::PairedBuffer::InsertOne(typename base::EdgeId, typename base::EdgeId, typename base::InnerPoint) [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits; Container = omnigraph::de::safe_btree_map]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:246:47, inlined from 'void omnigraph::de::PairedBufferBase::InsertWithConj(EdgeId, EdgeId, InnerPoint) [with Derived = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:108:58, inlined from 'void omnigraph::de::PairedBufferBase::Add(EdgeId, EdgeId, Point) [with Derived = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:56:23, inlined from 'void debruijn_graph::PairInfoImprover::ContradictionalRemover::FindInconsistent(debruijn_graph::PairInfoImprover::EdgeId, debruijn_graph::PairInfoImprover::Index&) const [with Graph = debruijn_graph::DeBruijnGraph]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/pair_info_improver.hpp:168:43: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 16 is outside array bounds of 'adt::SmallPODVector >::value_type [1]' {aka 'omnigraph::de::PointT [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void debruijn_graph::PairInfoImprover::ContradictionalRemover::FindInconsistent(debruijn_graph::PairInfoImprover::EdgeId, debruijn_graph::PairInfoImprover::Index&) const [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:580:20: note: at offset 16 into object 'tmp' of size 16 580 | value_type tmp(std::forward(args)...); | ^~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]', inlined from 'T* adt::SmallPODVector::emplace(const_iterator, ArgTypes&& ...) [with ArgTypes = {const omnigraph::de::PointT&}; T = omnigraph::de::PointT; Container = adt::impl::HybridAllocatedStorage, 3>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:581:22, inlined from 'std::pair::iterator, bool> adt::flat_set::emplace(First&&, Args&& ...) [with First = const omnigraph::de::PointT&; Args = {}; T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:136:34, inlined from 'std::pair::iterator, bool> adt::flat_set::insert(const value_type&) [with T = omnigraph::de::PointT; Comp = std::less >; Container = adt::SmallPODVector]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/flat_set.hpp:62:79, inlined from 'std::pair, adt::SmallPODVector>::iterator, bool> omnigraph::de::Histogram::insert(const value_type&) [with Point = omnigraph::de::PointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:97:79, inlined from 'typename std::enable_if<(! omnigraph::de::Histogram::can_merge::value), long unsigned int>::type omnigraph::de::Histogram::merge_point(const U&) [with U = omnigraph::de::PointT; Point = omnigraph::de::PointT]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:160:29, inlined from 'std::pair, G, Traits>::InnerPoint> >::pointer, long unsigned int> omnigraph::de::PairedBuffer::InsertOne(typename base::EdgeId, typename base::EdgeId, typename base::InnerPoint) [with G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits; Container = omnigraph::de::safe_btree_map]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:246:47, inlined from 'void omnigraph::de::PairedBufferBase::InsertWithConj(EdgeId, EdgeId, InnerPoint) [with Derived = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:108:58, inlined from 'void omnigraph::de::PairedBufferBase::Add(EdgeId, EdgeId, Point) [with Derived = omnigraph::de::PairedBuffer; G = debruijn_graph::DeBruijnGraph; Traits = omnigraph::de::PointTraits]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:56:23, inlined from 'void debruijn_graph::PairInfoImprover::ContradictionalRemover::FindInconsistent(debruijn_graph::PairInfoImprover::EdgeId, debruijn_graph::PairInfoImprover::Index&) const [with Graph = debruijn_graph::DeBruijnGraph]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/pair_info_improver.hpp:170:43: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 16 is outside array bounds of 'adt::SmallPODVector >::value_type [1]' {aka 'omnigraph::de::PointT [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void debruijn_graph::PairInfoImprover::ContradictionalRemover::FindInconsistent(debruijn_graph::PairInfoImprover::EdgeId, debruijn_graph::PairInfoImprover::Index&) const [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:580:20: note: at offset 16 into object 'tmp' of size 16 580 | value_type tmp(std::forward(args)...); | ^~~ [ 81%] Linking CXX static library libinput.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/cmake -P CMakeFiles/input.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io && /usr/bin/cmake -E cmake_link_script CMakeFiles/input.dir/link.txt --verbose=1 /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/bin/ar qc libinput.a CMakeFiles/input.dir/reads/parser.cpp.o CMakeFiles/input.dir/reads/paired_readers.cpp.o CMakeFiles/input.dir/reads/binary_converter.cpp.o CMakeFiles/input.dir/reads/binary_streams.cpp.o CMakeFiles/input.dir/reads/io_helper.cpp.o CMakeFiles/input.dir/dataset_support/read_converter.cpp.o CMakeFiles/input.dir/dataset_support/dataset_readers.cpp.o CMakeFiles/input.dir/sam/read.cpp.o CMakeFiles/input.dir/sam/sam_reader.cpp.o /usr/bin/ranlib libinput.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 81%] Built target input In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/histogram.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info_buffer.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info/paired_info.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/paired_library.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31, inlined from 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:586:39: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:580:12: note: at offset 8 into object 'e' of size 8 580 | EdgeId AddSingleEdge(VertexId v1, VertexId v2, | ^~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/bits/alloc_traits.h:39, from /usr/include/c++/14/ext/alloc_traits.h:34, from /usr/include/c++/14/bits/hashtable_policy.h:39, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/pack.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/stage.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/gap_closer.hpp:17, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/gap_closer.cpp:8: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/perf/perfcounter.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/logger/logger.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:10: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/perf/perfcounter.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/logger/logger.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/repeat_resolving.cpp:8: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ [ 81%] Linking CXX static library libmodules.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/cmake -P CMakeFiles/modules.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules && /usr/bin/cmake -E cmake_link_script CMakeFiles/modules.dir/link.txt --verbose=1 /usr/bin/ar qc libmodules.a CMakeFiles/modules.dir/chromosome_remover.cpp.o CMakeFiles/modules.dir/genome_consistance_checker.cpp.o CMakeFiles/modules.dir/alignment/gap_info.cpp.o CMakeFiles/modules.dir/alignment/bwa_index.cpp.o CMakeFiles/modules.dir/alignment/long_read_mapper.cpp.o CMakeFiles/modules.dir/alignment/sequence_mapper.cpp.o CMakeFiles/modules.dir/alignment/sequence_mapper_notifier.cpp.o CMakeFiles/modules.dir/alignment/pacbio/gap_filler.cpp.o CMakeFiles/modules.dir/alignment/pacbio/gap_dijkstra.cpp.o CMakeFiles/modules.dir/alignment/pacbio/g_aligner.cpp.o /usr/bin/ranlib libmodules.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 81%] Built target modules [ 81%] Linking CXX static library libpath_extend.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/cmake -P CMakeFiles/path_extend.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend && /usr/bin/cmake -E cmake_link_script CMakeFiles/path_extend.dir/link.txt --verbose=1 /usr/bin/ar qc libpath_extend.a CMakeFiles/path_extend.dir/pe_config_struct.cpp.o CMakeFiles/path_extend.dir/loop_detector.cpp.o CMakeFiles/path_extend.dir/loop_traverser.cpp.o CMakeFiles/path_extend.dir/gap_analyzer.cpp.o CMakeFiles/path_extend.dir/path_extenders.cpp.o CMakeFiles/path_extend.dir/pe_resolver.cpp.o CMakeFiles/path_extend.dir/overlap_remover.cpp.o CMakeFiles/path_extend.dir/pipeline/launch_support.cpp.o CMakeFiles/path_extend.dir/pipeline/launcher.cpp.o CMakeFiles/path_extend.dir/pipeline/extenders_logic.cpp.o CMakeFiles/path_extend.dir/scaffolder2015/extension_chooser2015.cpp.o CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph.cpp.o CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_constructor.cpp.o CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_visualizer.cpp.o CMakeFiles/path_extend.dir/scaffolder2015/connection_condition2015.cpp.o CMakeFiles/path_extend.dir/scaffolder2015/path_polisher.cpp.o /usr/bin/ranlib libpath_extend.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 81%] Built target path_extend make -f common/pipeline/CMakeFiles/pipeline.dir/build.make common/pipeline/CMakeFiles/pipeline.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/pipeline/CMakeFiles/pipeline.dir/build.make common/pipeline/CMakeFiles/pipeline.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 81%] Building CXX object common/pipeline/CMakeFiles/pipeline.dir/config_struct.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/pipeline/CMakeFiles/pipeline.dir/config_struct.cpp.o -MF CMakeFiles/pipeline.dir/config_struct.cpp.o.d -o CMakeFiles/pipeline.dir/config_struct.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/config_struct.cpp [ 81%] Building CXX object common/pipeline/CMakeFiles/pipeline.dir/library.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/pipeline/CMakeFiles/pipeline.dir/library.cpp.o -MF CMakeFiles/pipeline.dir/library.cpp.o.d -o CMakeFiles/pipeline.dir/library.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/library.cpp [ 82%] Building CXX object common/pipeline/CMakeFiles/pipeline.dir/graph_pack.cpp.o [ 82%] Building CXX object common/pipeline/CMakeFiles/pipeline.dir/stage.cpp.o [ 82%] Building CXX object common/pipeline/CMakeFiles/pipeline.dir/library_data.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/pipeline/CMakeFiles/pipeline.dir/library_data.cpp.o -MF CMakeFiles/pipeline.dir/library_data.cpp.o.d -o CMakeFiles/pipeline.dir/library_data.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/library_data.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/pipeline/CMakeFiles/pipeline.dir/graph_pack.cpp.o -MF CMakeFiles/pipeline.dir/graph_pack.cpp.o.d -o CMakeFiles/pipeline.dir/graph_pack.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/pipeline/CMakeFiles/pipeline.dir/stage.cpp.o -MF CMakeFiles/pipeline.dir/stage.cpp.o.d -o CMakeFiles/pipeline.dir/stage.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/stage.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_set.h:27, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:12: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/stacktrace.hpp:17, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/verify.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/ph_map/storing_traits.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/ph_map/key_with_hash.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/ph_map/perfect_hash_map.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/index/edge_multi_index.hpp:10: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/components/connected_component.hpp:5, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/stage.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:18, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/genomic_quality.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.cpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp: In instantiation of 'void debruijn_graph::KmerMapper::HandleGlue(EdgeId, EdgeId, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:147:10: required from here 147 | void HandleGlue(EdgeId new_edge, EdgeId edge1, EdgeId edge2) override { | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:147:28: warning: unused parameter 'new_edge' [-Wunused-parameter] 147 | void HandleGlue(EdgeId new_edge, EdgeId edge1, EdgeId edge2) override { | ~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [ 82%] Linking CXX static library libspades-stages.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/cmake -P CMakeFiles/spades-stages.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-stages.dir/link.txt --verbose=1 /usr/bin/ar qc libspades-stages.a "CMakeFiles/spades-stages.dir/gap_closer.cpp.o" "CMakeFiles/spades-stages.dir/mismatch_correction.cpp.o" "CMakeFiles/spades-stages.dir/pair_info_count.cpp.o" "CMakeFiles/spades-stages.dir/second_phase_setup.cpp.o" "CMakeFiles/spades-stages.dir/distance_estimation.cpp.o" "CMakeFiles/spades-stages.dir/repeat_resolving.cpp.o" "CMakeFiles/spades-stages.dir/contig_output_stage.cpp.o" "CMakeFiles/spades-stages.dir/hybrid_aligning.cpp.o" "CMakeFiles/spades-stages.dir/chromosome_removal.cpp.o" "CMakeFiles/spades-stages.dir/extract_domains.cpp.o" "CMakeFiles/spades-stages.dir/domain_matcher.cpp.o" "CMakeFiles/spades-stages.dir/domain_graph_construction.cpp.o" "CMakeFiles/spades-stages.dir/restricted_edges_filling.cpp.o" "CMakeFiles/spades-stages.dir/load_graph.cpp.o" "CMakeFiles/spades-stages.dir/domain_graph.cpp.o" /usr/bin/ranlib libspades-stages.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 82%] Built target spades-stages /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/bits/alloc_traits.h:39, from /usr/include/c++/14/ext/alloc_traits.h:34, from /usr/include/c++/14/bits/hashtable_policy.h:39, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/pack.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.cpp:7: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ [ 82%] Linking CXX static library libpipeline.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline && /usr/bin/cmake -P CMakeFiles/pipeline.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline && /usr/bin/cmake -E cmake_link_script CMakeFiles/pipeline.dir/link.txt --verbose=1 /usr/bin/ar qc libpipeline.a CMakeFiles/pipeline.dir/config_struct.cpp.o CMakeFiles/pipeline.dir/graph_pack.cpp.o CMakeFiles/pipeline.dir/library.cpp.o CMakeFiles/pipeline.dir/library_data.cpp.o CMakeFiles/pipeline.dir/stage.cpp.o /usr/bin/ranlib libpipeline.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 82%] Built target pipeline make -f common/stages/CMakeFiles/stages.dir/build.make common/stages/CMakeFiles/stages.dir/depend make -f projects/ionhammer/CMakeFiles/spades-ionhammer.dir/build.make projects/ionhammer/CMakeFiles/spades-ionhammer.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer/CMakeFiles/spades-ionhammer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/stages/CMakeFiles/stages.dir/build.make common/stages/CMakeFiles/stages.dir/build make -f projects/ionhammer/CMakeFiles/spades-ionhammer.dir/build.make projects/ionhammer/CMakeFiles/spades-ionhammer.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 83%] Building CXX object common/stages/CMakeFiles/stages.dir/read_conversion.cpp.o [ 83%] Building CXX object common/stages/CMakeFiles/stages.dir/simplification.cpp.o [ 83%] Building CXX object common/stages/CMakeFiles/stages.dir/construction.cpp.o [ 83%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/kmer_data.cpp.o [ 83%] Building CXX object common/stages/CMakeFiles/stages.dir/ss_edge_split.cpp.o [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/kmer_helpers.cpp.o [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/err_helper_table.cpp.o [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/seqeval/BaseHypothesisEvaluator.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/kmer_data.cpp.o -MF CMakeFiles/spades-ionhammer.dir/kmer_data.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/kmer_data.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/kmer_data.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/stages/CMakeFiles/stages.dir/construction.cpp.o -MF CMakeFiles/stages.dir/construction.cpp.o.d -o CMakeFiles/stages.dir/construction.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/construction.cpp [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/subcluster.cpp.o [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/seqeval/TreephaserLite.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/stages/CMakeFiles/stages.dir/read_conversion.cpp.o -MF CMakeFiles/stages.dir/read_conversion.cpp.o.d -o CMakeFiles/stages.dir/read_conversion.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/read_conversion.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/err_helper_table.cpp.o -MF CMakeFiles/spades-ionhammer.dir/err_helper_table.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/err_helper_table.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/err_helper_table.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/stages/CMakeFiles/stages.dir/simplification.cpp.o -MF CMakeFiles/stages.dir/simplification.cpp.o.d -o CMakeFiles/stages.dir/simplification.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/kmer_helpers.cpp.o -MF CMakeFiles/spades-ionhammer.dir/kmer_helpers.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/kmer_helpers.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/kmer_helpers.cpp [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/reference.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/seqeval/BaseHypothesisEvaluator.cpp.o -MF CMakeFiles/spades-ionhammer.dir/seqeval/BaseHypothesisEvaluator.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/seqeval/BaseHypothesisEvaluator.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/BaseHypothesisEvaluator.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/stages/CMakeFiles/stages.dir/ss_edge_split.cpp.o -MF CMakeFiles/stages.dir/ss_edge_split.cpp.o.d -o CMakeFiles/stages.dir/ss_edge_split.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/ss_edge_split.cpp [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/main.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/seqeval/TreephaserLite.cpp.o -MF CMakeFiles/spades-ionhammer.dir/seqeval/TreephaserLite.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/seqeval/TreephaserLite.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/subcluster.cpp.o -MF CMakeFiles/spades-ionhammer.dir/subcluster.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/subcluster.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/subcluster.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/reference.cpp.o -MF CMakeFiles/spades-ionhammer.dir/reference.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/reference.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/reference.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/main.cpp.o -MF CMakeFiles/spades-ionhammer.dir/main.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/main.cpp [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/config_struct.cpp.o [ 84%] Building CXX object common/stages/CMakeFiles/stages.dir/genomic_info_filler.cpp.o [ 84%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/quality_metrics.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include 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projects/ionhammer/CMakeFiles/spades-ionhammer.dir/config_struct.cpp.o -MF CMakeFiles/spades-ionhammer.dir/config_struct.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/config_struct.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/config_struct.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/stages/CMakeFiles/stages.dir/genomic_info_filler.cpp.o -MF CMakeFiles/stages.dir/genomic_info_filler.cpp.o.d -o CMakeFiles/stages.dir/genomic_info_filler.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/genomic_info_filler.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/quality_metrics.cpp.o -MF CMakeFiles/spades-ionhammer.dir/quality_metrics.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/quality_metrics.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/quality_metrics.cpp [ 86%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/hamcluster_1.cpp.o [ 86%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/quality_thresholds_estimator.cpp.o [ 86%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/normal_quality_model.cpp.o [ 86%] Building CXX object projects/ionhammer/CMakeFiles/spades-ionhammer.dir/gamma_poisson_model.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/gamma_poisson_model.cpp.o -MF CMakeFiles/spades-ionhammer.dir/gamma_poisson_model.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/gamma_poisson_model.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/gamma_poisson_model.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/quality_thresholds_estimator.cpp.o -MF CMakeFiles/spades-ionhammer.dir/quality_thresholds_estimator.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/quality_thresholds_estimator.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/quality_thresholds_estimator.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/normal_quality_model.cpp.o -MF CMakeFiles/spades-ionhammer.dir/normal_quality_model.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/normal_quality_model.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/normal_quality_model.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/ionhammer/CMakeFiles/spades-ionhammer.dir/hamcluster_1.cpp.o -MF CMakeFiles/spades-ionhammer.dir/hamcluster_1.cpp.o.d -o CMakeFiles/spades-ionhammer.dir/hamcluster_1.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/hamcluster_1.cpp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp: In member function 'void TreephaserLite::SetModelParameters(double, double, double)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:85:76: warning: conversion from 'double' to '__gnu_cxx::__alloc_traits, float>::value_type' {aka 'float'} may change value [-Wfloat-conversion] 85 | transition_base_[nuc][flow] = nuc_avaliability[nuc] * (1-droop_rate) * (1-incomplete_extension_rate); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:86:63: warning: conversion from 'double' to '__gnu_cxx::__alloc_traits, float>::value_type' {aka 'float'} may change value [-Wfloat-conversion] 86 | transition_flow_[nuc][flow] = (1-nuc_avaliability[nuc]) + nuc_avaliability[nuc] * (1-droop_rate) * incomplete_extension_rate; | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp: In member function 'void TreephaserLite::WindowedNormalize(BasecallerRead&, int, int) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:97:45: warning: conversion from 'std::vector::size_type' {aka 'long unsigned int'} to 'int' may change value [-Wconversion] 97 | int num_flows = read.raw_measurements.size(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:127:52: warning: conversion from 'int' to 'float' may change value [-Wconversion] 127 | float delta = (next_normalizer - normalizer) / window_size; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:166:52: warning: conversion from 'int' to 'float' may change value [-Wconversion] 166 | float delta = (next_normalizer - normalizer) / window_size; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp: In member function 'void TreephaserLite::Solve(BasecallerRead&, int, int)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:350:38: warning: conversion from 'double' to 'float' changes value from '1.0e+20' to '1.00000002e+20f' [-Wfloat-conversion] 350 | float sum_of_squares_upper_bound = 1e20; //max_flows; // Squared distance of solution to measurements | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:409:35: warning: conversion from 'double' to 'float' changes value from '-1.0000000000000001e-1' to '-1.00000001e-1f' [-Wfloat-conversion] 409 | float max_per_flow_metric = -0.1; | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/TreephaserLite.cpp:514:72: warning: conversion from 'double' to 'float' may change value [-Wfloat-conversion] 514 | child->per_flow_metric = (child->path_metric + 0.5 * penalty1) / child->flow; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/BaseHypothesisEvaluator.cpp: In function 'void BaseHypothesisEvaluator(BamTools::BamAlignment&, const std::string&, const std::string&, float&, float&, int)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/BaseHypothesisEvaluator.cpp:26:56: warning: conversion from 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} to 'int' may change value [-Wconversion] 26 | if (not GetBamTags(alignment, flow_order_str.length(), measurements, phase_params, start_flow)) | ~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/BaseHypothesisEvaluator.cpp:28:34: warning: conversion from 'std::vector::size_type' {aka 'long unsigned int'} to 'int' may change value [-Wconversion] 28 | num_flows = measurements.size(); | ~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/BaseHypothesisEvaluator.cpp:46:57: warning: conversion from 'std::vector::size_type' {aka 'long unsigned int'} to 'unsigned int' may change value [-Wconversion] 46 | unsigned int prefix_size = master_read.sequence.size(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/BaseHypothesisEvaluator.cpp: In function 'void RevComplementInPlace(std::string&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/seqeval/BaseHypothesisEvaluator.cpp:292:32: warning: conversion from 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} to 'int' may change value [-Wconversion] 292 | int backward_idx = seq.size()-1; | ~~~~~~~~~~^~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/genomic_info_filler.cpp:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/construction.cpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper_notifier.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/ss_edge_split.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/hkmer.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/kmer_data.hpp:16, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/kmer_data.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/HSeq.hpp: In instantiation of 'static size_t hammer::HSeq::GetDataSize(size_t) [with long unsigned int N = 16; size_t = long unsigned int]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index_builder.hpp:175:52: required from 'void kmers::KMerDiskStorage::merge() [with S = hammer::HSeq<16>; traits = kmers::kmer_index_traits >]' 175 | BucketStorage bucket(*entry, Seq::GetDataSize(k_), false); | ~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_index_builder.hpp:446:25: required from 'auto kmers::KMerIndexBuilder::BuildIndex(Index&, kmers::KMerCounter&, bool) [with Index = kmers::KMerIndex > >; typename Index::KMerSeq = hammer::HSeq<16>]' 446 | kmer_storage.merge(); | ~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/kmer_data.cpp:172:102: required from here 172 | auto res = kmers::KMerIndexBuilder(num_files_, cfg::get().max_nthreads).BuildIndex(data.index_, counter, false); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/HSeq.hpp:93:36: warning: unused parameter 'size' [-Wunused-parameter] 93 | static size_t GetDataSize(size_t size) { | ~~~~~~~^~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/construction.cpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp: In instantiation of 'void debruijn_graph::FastGraphFromSequencesConstructor::ConstructGraph(Graph&, const std::vector&) const [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:547:85: required from 'void debruijn_graph::DeBruijnGraphExtentionConstructor::ConstructGraph(bool) [with Graph = debruijn_graph::DeBruijnGraph]' 547 | FastGraphFromSequencesConstructor(kmer_size_, origin_).ConstructGraph(graph_, edge_sequences); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/construction.cpp:357:110: required from here 357 | DeBruijnGraphExtentionConstructor(gp.get_mutable(), storage().ext_index).ConstructGraph(storage().params.keep_perfect_loops); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:488:50: warning: conversion from 'std::vector::size_type' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 488 | graph.ereserve(size_t(2.01*sequences.size())); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:504:36: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 504 | graph.vreserve(size_t(2.01*size)); | ^~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/main.cpp: In static member function 'static bool hammer::correction::TKMerDataEstimator::stage(hammer_config::HammerStage, hammer_config::HammerStage)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/ionhammer/main.cpp:90:3: warning: control reaches end of non-void function [-Wreturn-type] 90 | } | ^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/graph_processing_algorithm.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/graph_processing_algorithm.hpp:59:87: required from 'bool omnigraph::EdgeProcessingAlgorithm::Run(const Priority&, ProceedConditionT) [with Priority = adt::identity; Graph = debruijn_graph::DeBruijnGraph; ProceedConditionT = func::TypedPredicate]' 59 | for (auto it = g_.SmartEdgeBegin(priority, conjugate_symmetry_); !it.IsEnd(); ++it) { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:328:94: required from here 328 | SelfConjugateDisruptor(g_, cfg::get().max_repeat_length, removal_handler_).Run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap >]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:345:28: required from here 345 | cov_cleaner.Run(); | ~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/compressor.hpp:123:26: required from 'size_t omnigraph::CompressAllVertices(Graph&, size_t, bool) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 123 | return compressor.Run(); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:474:24: required from here 474 | CompressAllVertices(gp.get_mutable()); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = omnigraph::LengthComparator]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap >]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::LengthComparator]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/graph_processing_algorithm.hpp:59:87: required from 'bool omnigraph::EdgeProcessingAlgorithm::Run(const Priority&, ProceedConditionT) [with Priority = omnigraph::LengthComparator; Graph = debruijn_graph::DeBruijnGraph; ProceedConditionT = func::TypedPredicate]' 59 | for (auto it = g_.SmartEdgeBegin(priority, conjugate_symmetry_); !it.IsEnd(); ++it) { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/single_cell_simplification.hpp:38:38: required from 'bool debruijn::simplification::RemoveErroneousEdgesInLengthOrder(Graph&, func::TypedPredicate, size_t, std::function) [with Graph = debruijn_graph::DeBruijnGraph; typename Graph::EdgeId = omnigraph::impl::EdgeId; size_t = long unsigned int; typename Graph::EdgeId = omnigraph::impl::EdgeId]' 38 | return erroneous_edge_remover.Run(omnigraph::LengthComparator(g), | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | omnigraph::LengthUpperBound(g, max_length)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/single_cell_simplification.hpp:56:45: required from 'bool debruijn::simplification::TopologyRemoveErroneousEdges(Graph&, const debruijn_graph::config::debruijn_config::simplification::topology_based_ec_remover&, std::function) [with Graph = debruijn_graph::DeBruijnGraph; typename Graph::EdgeId = omnigraph::impl::EdgeId]' 56 | return RemoveErroneousEdgesInLengthOrder(g, condition, max_length, removal_handler); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:83:52: required from here 83 | bool changed = TopologyRemoveErroneousEdges(g_, simplif_cfg_.tec, handler); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31, inlined from 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:586:39: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'omnigraph::GraphCore::EdgeId omnigraph::GraphCore::AddSingleEdge(VertexId, VertexId, const EdgeData&, EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:580:12: note: at offset 8 into object 'e' of size 8 580 | EdgeId AddSingleEdge(VertexId v1, VertexId v2, | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_tip_clipper.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:17, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:17: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/dominated_set_finder.hpp: In instantiation of 'Range omnigraph::DominatedSetFinder::NeighbourDistanceRange(VertexId, bool) const [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/dominated_set_finder.hpp:100:23: required from 'bool omnigraph::DominatedSetFinder::FillDominated() [with Graph = debruijn_graph::DeBruijnGraph]' 100 | Range r = NeighbourDistanceRange(v); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_tip_clipper.hpp:94:33: required from 'omnigraph::GraphComponent omnigraph::ComplexTipFinder::operator()(VertexId) const [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 94 | if (finder.FillDominated()) { | ~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_tip_clipper.hpp:149:49: required from 'omnigraph::ComplexTipClipper::ComplexTipClipper(Graph&, double, size_t, size_t, size_t, const std::string&, HandlerF) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int; std::string = std::__cxx11::basic_string; HandlerF = std::function, std::allocator >&)>]' 149 | [&](VertexId v) {return !finder_(v).empty();}, chunk_cnt); | ~~~~~~~^~~ /usr/include/c++/14/bits/stl_construct.h:119:7: required from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = omnigraph::ComplexTipClipper; _Args = {debruijn_graph::DeBruijnGraph&, double&, long unsigned int&, long unsigned int, long unsigned int, const char (&)[1], function, allocator >&)>&}]' 119 | ::new((void*)__p) _Tp(std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/alloc_traits.h:706:19: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/c++/14/bits/shared_ptr_base.h:969:16: required from 'std::__shared_count<_Lp>::__shared_count(_Tp*&, std::_Sp_alloc_shared_tag<_Alloc>, _Args&& ...) [with _Tp = omnigraph::ComplexTipClipper; _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, double&, long unsigned int&, long unsigned int, long unsigned int, const char (&)[1], std::function, std::allocator >&)>&}; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 969 | auto __pi = ::new (__mem) | ^~~~~~~~~~~~~ 970 | _Sp_cp_type(__a._M_a, std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr_base.h:1713:14: required from 'std::__shared_ptr<_Tp, _Lp>::__shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, double&, long unsigned int&, long unsigned int, long unsigned int, const char (&)[1], std::function, std::allocator >&)>&}; _Tp = omnigraph::ComplexTipClipper; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 1713 | : _M_ptr(), _M_refcount(_M_ptr, __tag, std::forward<_Args>(__args)...) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr.h:463:59: required from 'std::shared_ptr<_Tp>::shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, double&, long unsigned int&, long unsigned int, long unsigned int, const char (&)[1], std::function, std::allocator >&)>&}; _Tp = omnigraph::ComplexTipClipper]' 463 | : __shared_ptr<_Tp>(__tag, std::forward<_Args>(__args)...) | ^ /usr/include/c++/14/bits/shared_ptr.h:1007:14: required from 'std::shared_ptr::value), _Tp>::type> std::make_shared(_Args&& ...) [with _Tp = omnigraph::ComplexTipClipper; _Args = {debruijn_graph::DeBruijnGraph&, double&, long unsigned int&, long unsigned int, long unsigned int, const char (&)[1], function, allocator >&)>&}; typename enable_if<(! is_array<_Tp>::value), _Tp>::type = omnigraph::ComplexTipClipper]' 1007 | return shared_ptr<_Tp>(_Sp_alloc_shared_tag<_Alloc>{__a}, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1008 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:492:65: required from 'omnigraph::AlgoPtr debruijn::simplification::ComplexTipClipperInstance(Graph&, debruijn_graph::config::debruijn_config::simplification::complex_tip_clipper, const SimplifInfoContainer&, typename omnigraph::ComponentRemover::HandlerF) [with Graph = debruijn_graph::DeBruijnGraph; omnigraph::AlgoPtr = std::shared_ptr >; typename omnigraph::ComponentRemover::HandlerF = std::function, std::allocator >&)>]' 492 | return std::make_shared>(g, ctc_conf.max_relative_coverage, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 493 | ctc_conf.max_edge_len, | ~~~~~~~~~~~~~~~~~~~~~~ 494 | parser.max_length_bound(), info.chunk_cnt(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 495 | "", removal_handler); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:248:42: required from here 248 | ComplexTipClipperInstance(g_, simplif_cfg_.complex_tc, info_container_, set_removal_handler_f), | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/dominated_set_finder.hpp:43:51: warning: unused parameter 'dominated_only' [-Wunused-parameter] 43 | Range NeighbourDistanceRange(VertexId v, bool dominated_only = true) const { | ~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/chimera_stats.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp: In instantiation of 'void omnigraph::simplification::relative_coverage::Component::RemoveFromBorder(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:83:9: required from 'void omnigraph::simplification::relative_coverage::Component::MakeInner(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 83 | RemoveFromBorder(v); | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:504:37: required from 'bool omnigraph::simplification::relative_coverage::component_remover::InnerComponentSearcher::FindComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 504 | component_.MakeInner(v); | ~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:667:49: required from 'boost::optional > omnigraph::simplification::relative_coverage::component_remover::RelativeCovComponentFinder::operator()(EdgeId) const [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]' 667 | if (component_searcher.FindComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:720:61: required from 'omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover::RelativeCoverageComponentRemover(Graph&, size_t, const omnigraph::FlankingCoverage&, double, size_t, size_t, size_t, double, HandlerF, size_t, std::string) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int; HandlerF = std::function, std::allocator >&)>; std::string = std::__cxx11::basic_string]' 720 | [&](EdgeId e) { return static_cast(finder_(e)); }, chunk_cnt); | ~~~~~~~^~~ /usr/include/c++/14/bits/stl_construct.h:119:7: required from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, function, allocator >&)>&, const long unsigned int&, __cxx11::basic_string, allocator >&}]' 119 | ::new((void*)__p) _Tp(std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/alloc_traits.h:706:19: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/c++/14/bits/shared_ptr_base.h:969:16: required from 'std::__shared_count<_Lp>::__shared_count(_Tp*&, std::_Sp_alloc_shared_tag<_Alloc>, _Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 969 | auto __pi = ::new (__mem) | ^~~~~~~~~~~~~ 970 | _Sp_cp_type(__a._M_a, std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr_base.h:1713:14: required from 'std::__shared_ptr<_Tp, _Lp>::__shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 1713 | : _M_ptr(), _M_refcount(_M_ptr, __tag, std::forward<_Args>(__args)...) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr.h:463:59: required from 'std::shared_ptr<_Tp>::shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover]' 463 | : __shared_ptr<_Tp>(__tag, std::forward<_Args>(__args)...) | ^ /usr/include/c++/14/bits/shared_ptr.h:1007:14: required from 'std::shared_ptr::value), _Tp>::type> std::make_shared(_Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, function, allocator >&)>&, const long unsigned int&, __cxx11::basic_string, allocator >&}; typename enable_if<(! is_array<_Tp>::value), _Tp>::type = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover]' 1007 | return shared_ptr<_Tp>(_Sp_alloc_shared_tag<_Alloc>{__a}, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1008 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:431:49: required from 'omnigraph::AlgoPtr debruijn::simplification::RelativeCoverageComponentRemoverInstance(Graph&, const omnigraph::FlankingCoverage&, const debruijn_graph::config::debruijn_config::simplification::relative_coverage_comp_remover&, const SimplifInfoContainer&, typename omnigraph::ComponentRemover::HandlerF) [with Graph = debruijn_graph::DeBruijnGraph; omnigraph::AlgoPtr = std::shared_ptr >; typename omnigraph::ComponentRemover::HandlerF = std::function, std::allocator >&)>]' 430 | return std::make_shared>(g, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ 432 | info.chunk_cnt(), | ~~~~~~~~~~~~~~~~~ 433 | flanking_cov, | ~~~~~~~~~~~~~ 434 | rcc_config.coverage_gap, | ~~~~~~~~~~~~~~~~~~~~~~~~ 435 | size_t(double(info.read_length()) * rcc_config.length_coeff), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 436 | size_t(double(info.read_length()) * rcc_config.tip_allowing_length_coeff), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 | connecting_path_length_bound, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 | max_coverage, | ~~~~~~~~~~~~~ 439 | removal_handler, rcc_config.vertex_count_limit, pics_dir); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:237:57: required from here 237 | RelativeCoverageComponentRemoverInstance(g_, flanking_cov, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ 238 | simplif_cfg_.rcc, info_container_, set_removal_handler_f), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:53:16: warning: unused variable 'cnt' [-Wunused-variable] 53 | size_t cnt = border_.erase(v); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:15: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:18: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp: In instantiation of 'omnigraph::ParallelBulgeRemover::SmartEdgeSet omnigraph::ParallelBulgeRemover::RetainIndependentBulges(std::vector&) const [with Graph = debruijn_graph::DeBruijnGraph; SmartEdgeSet = omnigraph::SmartSetIterator >]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:720:42: required from 'size_t omnigraph::ParallelBulgeRemover::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 720 | auto interacting_edges = RetainIndependentBulges(bulges); | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:677:12: required from here 677 | size_t Run(bool force_primary_launch, double /*iter_run_progress*/) override { | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:581:16: warning: unused variable 'total_cnt' [-Wunused-variable] 581 | size_t total_cnt = bulges.size(); | ^~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:19: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'bool omnigraph::complex_br::ComponentProjector::SplitComponent() [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:813:14: required from 'bool omnigraph::complex_br::ComponentProjector::ProjectComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 813 | if (!SplitComponent()) { | ^~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1121:44: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::ProcessComponent(omnigraph::complex_br::LocalizedComponent&, size_t) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 1121 | if (!projector.ProjectComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1149:17: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::InnerProcess(VertexId, std::vector&) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId]' 1149 | if (ProcessComponent(component, candidate_cnt)) { | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1195:13: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::Process(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 1195 | if (InnerProcess(v, vertices_to_post_process)) { | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1189:10: required from here 1189 | bool Process(VertexId v) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:777:26: warning: variable 'inner_v' set but not used [-Wunused-but-set-variable] 777 | VertexId inner_v = g_.EdgeEnd(split_res.first); | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'omnigraph::complex_br::ComponentProjector::EdgeId omnigraph::complex_br::ComponentProjector::CorrespondingTreeEdge(EdgeId) const [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:824:29: required from 'bool omnigraph::complex_br::ComponentProjector::ProjectComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 824 | EdgeId target = CorrespondingTreeEdge(*it); | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1121:44: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::ProcessComponent(omnigraph::complex_br::LocalizedComponent&, size_t) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 1121 | if (!projector.ProjectComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1149:17: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::InnerProcess(VertexId, std::vector&) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId]' 1149 | if (ProcessComponent(component, candidate_cnt)) { | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1195:13: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::Process(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 1195 | if (InnerProcess(v, vertices_to_post_process)) { | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1189:10: required from here 1189 | bool Process(VertexId v) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:793:16: warning: unused variable 'end_height' [-Wunused-variable] 793 | size_t end_height = component_.avg_distance(g_.EdgeEnd(e)); | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::SkeletonTree::HandleDelete(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:309:10: required from here 309 | void HandleDelete(VertexId v) override { | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:309:32: warning: unused parameter 'v' [-Wunused-parameter] 309 | void HandleDelete(VertexId v) override { | ~~~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::SkeletonTree::HandleMerge(const std::vector&, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; typename Graph::EdgeId = omnigraph::impl::EdgeId; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:320:10: required from here 320 | void HandleMerge(const std::vector &old_edges, EdgeId /*new_edge*/) override { | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:322:21: warning: variable 'e' set but not used [-Wunused-but-set-variable] 322 | for (EdgeId e : old_edges) { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::ComponentColoring::HandleGlue(EdgeId, EdgeId, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:476:18: required from here 476 | virtual void HandleGlue(EdgeId /*new_edge*/, EdgeId edge1, EdgeId edge2) { | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:476:71: warning: unused parameter 'edge2' [-Wunused-parameter] 476 | virtual void HandleGlue(EdgeId /*new_edge*/, EdgeId edge1, EdgeId edge2) { | ~~~~~~~^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::LocalizedComponent::HandleSplit(EdgeId, EdgeId, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:241:18: required from here 241 | virtual void HandleSplit(EdgeId old_edge, EdgeId new_edge_1, EdgeId /*new_edge_2*/) { | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:244:18: warning: variable 'end' set but not used [-Wunused-but-set-variable] 244 | VertexId end = g_.EdgeEnd(old_edge); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [ 86%] Linking CXX executable ../../bin/spades-ionhammer cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/ionhammer && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-ionhammer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-ionhammer.dir/link.d "CMakeFiles/spades-ionhammer.dir/kmer_data.cpp.o" "CMakeFiles/spades-ionhammer.dir/subcluster.cpp.o" "CMakeFiles/spades-ionhammer.dir/err_helper_table.cpp.o" "CMakeFiles/spades-ionhammer.dir/config_struct.cpp.o" "CMakeFiles/spades-ionhammer.dir/kmer_helpers.cpp.o" "CMakeFiles/spades-ionhammer.dir/seqeval/BaseHypothesisEvaluator.cpp.o" "CMakeFiles/spades-ionhammer.dir/seqeval/TreephaserLite.cpp.o" "CMakeFiles/spades-ionhammer.dir/main.cpp.o" "CMakeFiles/spades-ionhammer.dir/reference.cpp.o" "CMakeFiles/spades-ionhammer.dir/quality_metrics.cpp.o" "CMakeFiles/spades-ionhammer.dir/quality_thresholds_estimator.cpp.o" "CMakeFiles/spades-ionhammer.dir/hamcluster_1.cpp.o" "CMakeFiles/spades-ionhammer.dir/gamma_poisson_model.cpp.o" "CMakeFiles/spades-ionhammer.dir/normal_quality_model.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-ionhammer ../../common/io/libinput.a ../../common/utils/libutils.a ../../common/pipeline/libpipeline.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a /usr/lib/x86_64-linux-gnu/libz.so ../../common/io/binary/libbinary_io.a ../../common/modules/path_extend/libpath_extend.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a -lssw ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target spades-ionhammer /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_set.h:27, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:12: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/bits/alloc_traits.h:39, from /usr/include/c++/14/ext/alloc_traits.h:34, from /usr/include/c++/14/bits/hashtable_policy.h:39, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/pack.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/graph_pack.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline/stage.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification.cpp:8: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [344]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 344 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ [ 86%] Linking CXX static library libstages.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages && /usr/bin/cmake -P CMakeFiles/stages.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages && /usr/bin/cmake -E cmake_link_script CMakeFiles/stages.dir/link.txt --verbose=1 /usr/bin/ar qc libstages.a CMakeFiles/stages.dir/read_conversion.cpp.o CMakeFiles/stages.dir/construction.cpp.o CMakeFiles/stages.dir/simplification.cpp.o CMakeFiles/stages.dir/ss_edge_split.cpp.o CMakeFiles/stages.dir/genomic_info_filler.cpp.o /usr/bin/ranlib libstages.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target stages make -f common/CMakeFiles/common_modules.dir/build.make common/CMakeFiles/common_modules.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/CMakeFiles/common_modules.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/CMakeFiles/common_modules.dir/build.make common/CMakeFiles/common_modules.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 86%] Building CXX object common/CMakeFiles/common_modules.dir/adt/concurrent_dsu.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT common/CMakeFiles/common_modules.dir/adt/concurrent_dsu.cpp.o -MF CMakeFiles/common_modules.dir/adt/concurrent_dsu.cpp.o.d -o CMakeFiles/common_modules.dir/adt/concurrent_dsu.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/concurrent_dsu.cpp [ 86%] Linking CXX static library libcommon_modules.a cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common && /usr/bin/cmake -P CMakeFiles/common_modules.dir/cmake_clean_target.cmake cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common && /usr/bin/cmake -E cmake_link_script CMakeFiles/common_modules.dir/link.txt --verbose=1 /usr/bin/ar qc libcommon_modules.a CMakeFiles/common_modules.dir/adt/concurrent_dsu.cpp.o /usr/bin/ranlib libcommon_modules.a make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target common_modules make -f projects/spades/CMakeFiles/spades-core.dir/build.make projects/spades/CMakeFiles/spades-core.dir/depend make -f projects/hammer/CMakeFiles/spades-hammer.dir/build.make projects/hammer/CMakeFiles/spades-hammer.dir/depend make -f projects/corrector/CMakeFiles/spades-corrector-core.dir/build.make projects/corrector/CMakeFiles/spades-corrector-core.dir/depend make -f projects/scaffold_correction/CMakeFiles/spades-truseq-scfcorrection.dir/build.make projects/scaffold_correction/CMakeFiles/spades-truseq-scfcorrection.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades/CMakeFiles/spades-core.dir/DependInfo.cmake "--color=" make -f projects/kmercount/CMakeFiles/spades-kmercount.dir/build.make projects/kmercount/CMakeFiles/spades-kmercount.dir/depend make -f projects/kmercount/CMakeFiles/spades-read-filter.dir/build.make projects/kmercount/CMakeFiles/spades-read-filter.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer/CMakeFiles/spades-hammer.dir/DependInfo.cmake "--color=" make -f projects/kmercount/CMakeFiles/spades-kmer-estimating.dir/build.make projects/kmercount/CMakeFiles/spades-kmer-estimating.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector/CMakeFiles/spades-corrector-core.dir/DependInfo.cmake "--color=" make -f projects/bin_converter/CMakeFiles/spades-convert-bin-to-fasta.dir/build.make projects/bin_converter/CMakeFiles/spades-convert-bin-to-fasta.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/scaffold_correction /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/scaffold_correction /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/scaffold_correction/CMakeFiles/spades-truseq-scfcorrection.dir/DependInfo.cmake "--color=" make -f projects/gbuilder/CMakeFiles/spades-gbuilder.dir/build.make projects/gbuilder/CMakeFiles/spades-gbuilder.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount/CMakeFiles/spades-kmercount.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount/CMakeFiles/spades-read-filter.dir/DependInfo.cmake "--color=" make -f projects/gmapper/CMakeFiles/spades-gmapper.dir/build.make projects/gmapper/CMakeFiles/spades-gmapper.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount/CMakeFiles/spades-kmer-estimating.dir/DependInfo.cmake "--color=" make -f projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/build.make projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_converter /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_converter /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_converter/CMakeFiles/spades-convert-bin-to-fasta.dir/DependInfo.cmake "--color=" make -f projects/spaligner/CMakeFiles/spaligner.dir/build.make projects/spaligner/CMakeFiles/spaligner.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gbuilder /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gbuilder /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gbuilder/CMakeFiles/spades-gbuilder.dir/DependInfo.cmake "--color=" make -f projects/spaligner/CMakeFiles/form_truealignments.dir/build.make projects/spaligner/CMakeFiles/form_truealignments.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gmapper /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gmapper /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gmapper/CMakeFiles/spades-gmapper.dir/DependInfo.cmake "--color=" make -f projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/build.make projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/unitig_coverage /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner/CMakeFiles/spaligner.dir/DependInfo.cmake "--color=" make -f projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/build.make projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/depend make -f projects/cds_subgraphs/CMakeFiles/cds-mapping-stats.dir/build.make projects/cds_subgraphs/CMakeFiles/cds-mapping-stats.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner/CMakeFiles/form_truealignments.dir/DependInfo.cmake "--color=" make -f projects/bin_analysis/CMakeFiles/mag-improve.dir/build.make projects/bin_analysis/CMakeFiles/mag-improve.dir/depend make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gsimplifier /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs/CMakeFiles/cds-mapping-stats.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_analysis /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_analysis/CMakeFiles/mag-improve.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/hammer/CMakeFiles/spades-hammer.dir/build.make projects/hammer/CMakeFiles/spades-hammer.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/spades/CMakeFiles/spades-core.dir/build.make projects/spades/CMakeFiles/spades-core.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/corrector/CMakeFiles/spades-corrector-core.dir/build.make projects/corrector/CMakeFiles/spades-corrector-core.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/scaffold_correction/CMakeFiles/spades-truseq-scfcorrection.dir/build.make projects/scaffold_correction/CMakeFiles/spades-truseq-scfcorrection.dir/build make -f projects/kmercount/CMakeFiles/spades-kmercount.dir/build.make projects/kmercount/CMakeFiles/spades-kmercount.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/kmercount/CMakeFiles/spades-read-filter.dir/build.make projects/kmercount/CMakeFiles/spades-read-filter.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/kmercount/CMakeFiles/spades-kmer-estimating.dir/build.make projects/kmercount/CMakeFiles/spades-kmer-estimating.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/bin_converter/CMakeFiles/spades-convert-bin-to-fasta.dir/build.make projects/bin_converter/CMakeFiles/spades-convert-bin-to-fasta.dir/build make -f projects/gbuilder/CMakeFiles/spades-gbuilder.dir/build.make projects/gbuilder/CMakeFiles/spades-gbuilder.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/gmapper/CMakeFiles/spades-gmapper.dir/build.make projects/gmapper/CMakeFiles/spades-gmapper.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/build.make projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/spaligner/CMakeFiles/spaligner.dir/build.make projects/spaligner/CMakeFiles/spaligner.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/build.make projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/build make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/cds_subgraphs/CMakeFiles/cds-mapping-stats.dir/build.make projects/cds_subgraphs/CMakeFiles/cds-mapping-stats.dir/build make -f projects/bin_analysis/CMakeFiles/mag-improve.dir/build.make projects/bin_analysis/CMakeFiles/mag-improve.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/spaligner/CMakeFiles/form_truealignments.dir/build.make projects/spaligner/CMakeFiles/form_truealignments.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/build.make projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/build make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 86%] Building CXX object projects/spades/CMakeFiles/spades-core.dir/pipeline.cpp.o [ 86%] Building CXX object projects/corrector/CMakeFiles/spades-corrector-core.dir/positional_read.cpp.o [ 86%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/hammer_tools.cpp.o [ 86%] Building CXX object projects/corrector/CMakeFiles/spades-corrector-core.dir/interesting_pos_processor.cpp.o [ 86%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/main.cpp.o [ 86%] Building CXX object projects/spades/CMakeFiles/spades-core.dir/main.cpp.o [ 87%] Building CXX object projects/spades/CMakeFiles/spades-core.dir/series_analysis.cpp.o [ 87%] Building CXX object projects/kmercount/CMakeFiles/spades-kmercount.dir/main.cpp.o [ 87%] Building CXX object projects/scaffold_correction/CMakeFiles/spades-truseq-scfcorrection.dir/main.cpp.o [ 87%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/kmer_data.cpp.o [ 87%] Building CXX object projects/kmercount/CMakeFiles/spades-read-filter.dir/read_filter.cpp.o [ 89%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/hamcluster.cpp.o [ 89%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/kmer_cluster.cpp.o [ 89%] Building CXX object projects/corrector/CMakeFiles/spades-corrector-core.dir/contig_processor.cpp.o [ 90%] Building CXX object projects/kmercount/CMakeFiles/spades-kmer-estimating.dir/kmer_estimating.cpp.o [ 90%] Building CXX object projects/spades/CMakeFiles/spades-core.dir/__/mts/contig_abundance.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/main.cpp.o -MF CMakeFiles/spades-hammer.dir/main.cpp.o.d -o CMakeFiles/spades-hammer.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/main.cpp [ 90%] Building CXX object projects/corrector/CMakeFiles/spades-corrector-core.dir/main.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-core.dir/pipeline.cpp.o -MF CMakeFiles/spades-core.dir/pipeline.cpp.o.d -o CMakeFiles/spades-core.dir/pipeline.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pipeline.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/scaffold_correction && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/scaffold_correction/CMakeFiles/spades-truseq-scfcorrection.dir/main.cpp.o -MF CMakeFiles/spades-truseq-scfcorrection.dir/main.cpp.o.d -o CMakeFiles/spades-truseq-scfcorrection.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/scaffold_correction/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/kmercount/CMakeFiles/spades-read-filter.dir/read_filter.cpp.o -MF CMakeFiles/spades-read-filter.dir/read_filter.cpp.o.d -o CMakeFiles/spades-read-filter.dir/read_filter.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/read_filter.cpp [ 91%] Building CXX object projects/bin_converter/CMakeFiles/spades-convert-bin-to-fasta.dir/convert_bin_to_fasta.cpp.o [ 91%] Building CXX object projects/gbuilder/CMakeFiles/spades-gbuilder.dir/main.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/corrector/CMakeFiles/spades-corrector-core.dir/positional_read.cpp.o -MF CMakeFiles/spades-corrector-core.dir/positional_read.cpp.o.d -o CMakeFiles/spades-corrector-core.dir/positional_read.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/positional_read.cpp [ 91%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/read_corrector.cpp.o [ 91%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/expander.cpp.o [ 91%] Building CXX object projects/gmapper/CMakeFiles/spades-gmapper.dir/main.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/kmercount/CMakeFiles/spades-kmer-estimating.dir/kmer_estimating.cpp.o -MF CMakeFiles/spades-kmer-estimating.dir/kmer_estimating.cpp.o.d -o CMakeFiles/spades-kmer-estimating.dir/kmer_estimating.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/kmer_estimating.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/corrector/CMakeFiles/spades-corrector-core.dir/interesting_pos_processor.cpp.o -MF CMakeFiles/spades-corrector-core.dir/interesting_pos_processor.cpp.o.d -o CMakeFiles/spades-corrector-core.dir/interesting_pos_processor.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/interesting_pos_processor.cpp [ 91%] Building CXX object projects/hammer/CMakeFiles/spades-hammer.dir/config_struct_hammer.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/corrector/CMakeFiles/spades-corrector-core.dir/contig_processor.cpp.o -MF CMakeFiles/spades-corrector-core.dir/contig_processor.cpp.o.d -o CMakeFiles/spades-corrector-core.dir/contig_processor.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/contig_processor.cpp [ 93%] Building CXX object projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/main.cpp.o [ 94%] Building CXX object projects/spaligner/CMakeFiles/spaligner.dir/align_longreads.cpp.o [ 94%] Building CXX object projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/profile_storage.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/corrector/CMakeFiles/spades-corrector-core.dir/main.cpp.o -MF CMakeFiles/spades-corrector-core.dir/main.cpp.o.d -o CMakeFiles/spades-corrector-core.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_converter && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_converter -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/bin_converter/CMakeFiles/spades-convert-bin-to-fasta.dir/convert_bin_to_fasta.cpp.o -MF CMakeFiles/spades-convert-bin-to-fasta.dir/convert_bin_to_fasta.cpp.o.d -o CMakeFiles/spades-convert-bin-to-fasta.dir/convert_bin_to_fasta.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_converter/convert_bin_to_fasta.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/hammer_tools.cpp.o -MF CMakeFiles/spades-hammer.dir/hammer_tools.cpp.o.d -o CMakeFiles/spades-hammer.dir/hammer_tools.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/hammer_tools.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-core.dir/main.cpp.o -MF CMakeFiles/spades-core.dir/main.cpp.o.d -o CMakeFiles/spades-core.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gbuilder && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gbuilder -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/gbuilder/CMakeFiles/spades-gbuilder.dir/main.cpp.o -MF CMakeFiles/spades-gbuilder.dir/main.cpp.o.d -o CMakeFiles/spades-gbuilder.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gbuilder/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gmapper && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gmapper -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/gmapper/CMakeFiles/spades-gmapper.dir/main.cpp.o -MF CMakeFiles/spades-gmapper.dir/main.cpp.o.d -o CMakeFiles/spades-gmapper.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gmapper/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/hamcluster.cpp.o -MF CMakeFiles/spades-hammer.dir/hamcluster.cpp.o.d -o CMakeFiles/spades-hammer.dir/hamcluster.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/hamcluster.cpp [ 94%] Building CXX object projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/subgraph_extraction.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spaligner/CMakeFiles/spaligner.dir/align_longreads.cpp.o -MF CMakeFiles/spaligner.dir/align_longreads.cpp.o.d -o CMakeFiles/spaligner.dir/align_longreads.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/align_longreads.cpp [ 94%] Building CXX object projects/bin_analysis/CMakeFiles/mag-improve.dir/main.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/kmercount/CMakeFiles/spades-kmercount.dir/main.cpp.o -MF CMakeFiles/spades-kmercount.dir/main.cpp.o.d -o CMakeFiles/spades-kmercount.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/unitig_coverage && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/main.cpp.o -MF CMakeFiles/unitig-coverage.dir/main.cpp.o.d -o CMakeFiles/unitig-coverage.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-core.dir/series_analysis.cpp.o -MF CMakeFiles/spades-core.dir/series_analysis.cpp.o.d -o CMakeFiles/spades-core.dir/series_analysis.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/series_analysis.cpp [ 94%] Building CXX object projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/main.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/unitig_coverage && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/unitig_coverage/CMakeFiles/unitig-coverage.dir/profile_storage.cpp.o -MF CMakeFiles/unitig-coverage.dir/profile_storage.cpp.o.d -o CMakeFiles/unitig-coverage.dir/profile_storage.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/profile_storage.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_analysis && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/bin_analysis/CMakeFiles/mag-improve.dir/main.cpp.o -MF CMakeFiles/mag-improve.dir/main.cpp.o.d -o CMakeFiles/mag-improve.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/main.cpp [ 95%] Building CXX object projects/cds_subgraphs/CMakeFiles/cds-mapping-stats.dir/stats.cpp.o [ 95%] Building CXX object projects/corrector/CMakeFiles/spades-corrector-core.dir/config_struct.cpp.o [ 95%] Building CXX object projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/stop_condon_finder.cpp.o [ 95%] Building CXX object projects/corrector/CMakeFiles/spades-corrector-core.dir/dataset_processor.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/subgraph_extraction.cpp.o -MF CMakeFiles/cds-subgraphs.dir/subgraph_extraction.cpp.o.d -o CMakeFiles/cds-subgraphs.dir/subgraph_extraction.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/subgraph_extraction.cpp [ 95%] Building CXX object projects/spaligner/CMakeFiles/form_truealignments.dir/form_truealignments.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/kmer_cluster.cpp.o -MF CMakeFiles/spades-hammer.dir/kmer_cluster.cpp.o.d -o CMakeFiles/spades-hammer.dir/kmer_cluster.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/kmer_cluster.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/main.cpp.o -MF CMakeFiles/cds-subgraphs.dir/main.cpp.o.d -o CMakeFiles/cds-subgraphs.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/main.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/easel/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/easel -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/hmmer/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/hmmer/src -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spades/CMakeFiles/spades-core.dir/__/mts/contig_abundance.cpp.o -MF CMakeFiles/spades-core.dir/__/mts/contig_abundance.cpp.o.d -o CMakeFiles/spades-core.dir/__/mts/contig_abundance.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/mts/contig_abundance.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/cds_subgraphs/CMakeFiles/cds-mapping-stats.dir/stats.cpp.o -MF CMakeFiles/cds-mapping-stats.dir/stats.cpp.o.d -o CMakeFiles/cds-mapping-stats.dir/stats.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/stats.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/kmer_data.cpp.o -MF CMakeFiles/spades-hammer.dir/kmer_data.cpp.o.d -o CMakeFiles/spades-hammer.dir/kmer_data.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/kmer_data.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/corrector/CMakeFiles/spades-corrector-core.dir/config_struct.cpp.o -MF CMakeFiles/spades-corrector-core.dir/config_struct.cpp.o.d -o CMakeFiles/spades-corrector-core.dir/config_struct.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/config_struct.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/config_struct_hammer.cpp.o -MF CMakeFiles/spades-hammer.dir/config_struct_hammer.cpp.o.d -o CMakeFiles/spades-hammer.dir/config_struct_hammer.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/config_struct_hammer.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/corrector/CMakeFiles/spades-corrector-core.dir/dataset_processor.cpp.o -MF CMakeFiles/spades-corrector-core.dir/dataset_processor.cpp.o.d -o CMakeFiles/spades-corrector-core.dir/dataset_processor.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/dataset_processor.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/read_corrector.cpp.o -MF CMakeFiles/spades-hammer.dir/read_corrector.cpp.o.d -o CMakeFiles/spades-hammer.dir/read_corrector.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/read_corrector.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/spaligner/CMakeFiles/form_truealignments.dir/form_truealignments.cpp.o -MF CMakeFiles/form_truealignments.dir/form_truealignments.cpp.o.d -o CMakeFiles/form_truealignments.dir/form_truealignments.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/form_truealignments.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/cds_subgraphs/CMakeFiles/cds-subgraphs.dir/stop_condon_finder.cpp.o -MF CMakeFiles/cds-subgraphs.dir/stop_condon_finder.cpp.o.d -o CMakeFiles/cds-subgraphs.dir/stop_condon_finder.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/stop_condon_finder.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/hammer/CMakeFiles/spades-hammer.dir/expander.cpp.o -MF CMakeFiles/spades-hammer.dir/expander.cpp.o.d -o CMakeFiles/spades-hammer.dir/expander.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/expander.cpp [ 95%] Building CXX object projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/__/unitig_coverage/profile_storage.cpp.o [ 96%] Building CXX object projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/main.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gsimplifier && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/__/unitig_coverage/profile_storage.cpp.o -MF CMakeFiles/spades-gsimplifier.dir/__/unitig_coverage/profile_storage.cpp.o.d -o CMakeFiles/spades-gsimplifier.dir/__/unitig_coverage/profile_storage.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/profile_storage.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gsimplifier && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT projects/gsimplifier/CMakeFiles/spades-gsimplifier.dir/main.cpp.o -MF CMakeFiles/spades-gsimplifier.dir/main.cpp.o.d -o CMakeFiles/spades-gsimplifier.dir/main.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier/main.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/profile_storage.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/profile_storage.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/stop_condon_finder.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/stop_condon_finder.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gbuilder/main.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/stop_condon_finder.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/subgraph_extraction.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/subgraph_extraction.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/read_corrector.cpp: In member function 'std::string ReadCorrector::CorrectReadRight(const std::string&, const std::string&, size_t)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/read_corrector.cpp:72:57: warning: conversion from 'long unsigned int' to 'double' may change value [-Wconversion] 72 | const size_t size_thr = size_t(100 * log2(read_size - right_pos)) + 1; | ~~~~~~~~~~^~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/profile_storage.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/profile_storage.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/hamcluster.cpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/parallel_radix_sort.hpp: In instantiation of 'void parallel_radix_sort::value_manager::PairValueManager::Start(ValueType*, size_t, int) [with ValueType = long unsigned int; int Base = 8; size_t = long unsigned int]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/parallel_radix_sort.hpp:543:13: required from 'static void parallel_radix_sort::PairSort::InitAndSort(PlainType*, ValueType*, size_t, int) [with PlainType = Seq<11, unsigned int>; ValueType = long unsigned int; UnsignedType = Seq<11, unsigned int>; Encoder = EncoderKMer; int Base = 8; size_t = long unsigned int]' 543 | vm.Start(vals, num_elems, num_threads); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/hamcluster.cpp:54:26: required from 'std::pair SubKMerSplitter::split(Op&&) [with Op = KMerHamClusterer::cluster(const std::string&, const KMerData&, dsu::ConcurrentDSU&)::::iterator&, size_t)>]' 54 | PairSort::InitAndSort(data.data(), blocks.data(), data.size(), data.size() > 1000*16 ? -1 : 1); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/hamcluster.cpp:147:21: required from here 147 | Splitter.split([&] (const std::vector::iterator &start, size_t sz) { | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 | if (sz < block_thr) { | ~~~~~~~~~~~~~~~~~~~~~ 149 | // Merge small blocks. | ~~~~~~~~~~~~~~~~~~~~~~ 150 | processBlockQuadratic(uf, start, sz, data, tau_); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 | } else { | ~~~~~~~~ 152 | big_blocks1 += 1; | ~~~~~~~~~~~~~~~~~ 153 | // Otherwise - dump for next iteration. | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 | for (unsigned i = 0; i < tau_ + 1; ++i) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | serialize(bfs, kfs, | ~~~~~~~~~~~~~~~~~~~ 156 | data, &start, sz, | ~~~~~~~~~~~~~~~~~ 157 | SubKMerStridedSerializer(i, tau_ + 1)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 | } | ~ 159 | } | ~ 160 | }); | ~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/parallel_radix_sort.hpp:400:42: warning: unused parameter 'num_elems' [-Wunused-parameter] 400 | void Start(ValueType *original, size_t num_elems, int num_threads) { | ~~~~~~~^~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/parallel_radix_sort.hpp:400:57: warning: unused parameter 'num_threads' [-Wunused-parameter] 400 | void Start(ValueType *original, size_t num_elems, int num_threads) { | ~~~~^~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gmapper/main.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_reader.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/toolchain/utils.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/stats.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/graph/gfa_writer.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/bin_refinement.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/main.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/profile_storage.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/main.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/stop_condon_finder.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/main.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_aligning.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pipeline.cpp:14: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier/simplification.hpp:8, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier/main.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/form_truealignments.cpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/contig_processor.cpp: In member function 'bool corrector::ContigProcessor::CountPositions(const sam_reader::SingleSamRead&, std::unordered_map&) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/contig_processor.cpp:164:65: warning: conversion from 'std::size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 164 | if ((aligned_length < min(read_len_double * 0.4, 40.0)) && (position > read_len_double / 2) && (contig_.length() > read_len_double / 2 + (double) position)) { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/corrector/contig_processor.cpp:164:115: warning: conversion from 'std::__cxx11::basic_string::size_type' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 164 | if ((aligned_length < min(read_len_double * 0.4, 40.0)) && (position > read_len_double / 2) && (contig_.length() > read_len_double / 2 + (double) position)) { | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/kmer_cluster.cpp: In member function 'size_t KMerClustering::SubClusterSingle(const std::vector&, std::vector >&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/hammer/kmer_cluster.cpp:357:9: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 357 | for (uint32_t j=0; j::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/bin_refinement.hpp: In member function 'bin_refinement::EdgeSet bin_refinement::BoundedRegionsExpander::ProcessComponent(const bin_refinement::VertexSet&, const bin_refinement::EdgeSet&, const bin_refinement::EdgeSet&) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/bin_refinement.hpp:248:47: warning: unused parameter 'reached' [-Wunused-parameter] 248 | EdgeSet ProcessComponent(const VertexSet &reached, | ~~~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/bin_refinement.hpp: In constructor 'bin_refinement::BoundedRegionsExpander::BoundedRegionsExpander(const debruijn_graph::Graph&, const std::set, std::allocator >&, size_t)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/bin_refinement.hpp:275:21: warning: variable 'e' set but not used [-Wunused-but-set-variable] 275 | for (EdgeId e : annotated) { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/bin_refinement.hpp: In constructor 'bin_refinement::OnlyAnnotatedReachableExpander::OnlyAnnotatedReachableExpander(const debruijn_graph::Graph&, const bin_refinement::EdgeSet&, size_t, double, double, const std::string&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/bin_refinement.hpp:465:21: warning: variable 'e' set but not used [-Wunused-but-set-variable] 465 | for (EdgeId e : annotated) { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pipeline.cpp: In function 'void spades::AddPreliminarySimplificationStages(StageManager&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/pipeline.cpp:135:19: warning: unused variable 'mode' [-Wunused-variable] 135 | pipeline_type mode = cfg::get().mode; | ^~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/scaffold_correction/scaffold_correction.hpp:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/scaffold_correction/main.cpp:17: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/edge_index.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:19, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/series_analysis.cpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gmapper/main.cpp:29: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp: In member function 'void debruijn_graph::gap_closing::MultiGapJoiner::UpdateGap(debruijn_graph::gap_closing::GapDescription&, debruijn_graph::gap_closing::EdgePair, debruijn_graph::gap_closing::EdgePair) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:457:14: warning: unused variable 'u1' [-Wunused-variable] 457 | bool u1 = UpdateLeft(gap, split_orig, split_res); | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:458:14: warning: unused variable 'u2' [-Wunused-variable] 458 | bool u2 = UpdateRight(gap, split_orig, split_res); | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp: In member function 'debruijn_graph::gap_closing::GapDescription debruijn_graph::gap_closing::HybridGapCloser::ConstructConsensus(gap_info_it, gap_info_it) const': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:630:16: warning: unused variable 'cur_len' [-Wunused-variable] 630 | size_t cur_len = end_it - start_it; | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp: In instantiation of 'void debruijn_graph::FastGraphFromSequencesConstructor::ConstructGraph(Graph&, const std::vector&) const [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gbuilder/main.cpp:197:122: required from here 197 | debruijn_graph::FastGraphFromSequencesConstructor(k, ext_index).ConstructGraph(g, edge_sequences); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:488:50: warning: conversion from 'std::vector::size_type' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 488 | graph.ereserve(size_t(2.01*sequences.size())); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:504:36: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 504 | graph.vreserve(size_t(2.01*size)); | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier/simplification.hpp: In function 'void debruijn::simplification::Simplify(debruijn_graph::GraphPack&, const SimplifInfoContainer&, bool, const std::function&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier/simplification.hpp:103:16: warning: unused variable 'using_edge_qual' [-Wunused-variable] 103 | const bool using_edge_qual = edge_qual.IsAttached(); | ^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/toolchain/utils.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/cds_subgraphs/main.cpp:13: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gbuilder/main.cpp:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/toolchain/utils.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/bin_analysis/main.cpp:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/toolchain/utils.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/toolchain/utils.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/unitig_coverage/main.cpp:15: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/compressor.hpp:123:26: required from 'size_t omnigraph::CompressAllVertices(Graph&, size_t, bool) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 123 | return compressor.Run(); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spades/hybrid_gap_closer.hpp:722:28: required from here 722 | CompressAllVertices(g_, /*chunk_cnt*/100); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gmapper/main.cpp:16: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/chimera_stats.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp: In instantiation of 'void omnigraph::simplification::relative_coverage::Component::RemoveFromBorder(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:83:9: required from 'void omnigraph::simplification::relative_coverage::Component::MakeInner(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 83 | RemoveFromBorder(v); | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:504:37: required from 'bool omnigraph::simplification::relative_coverage::component_remover::InnerComponentSearcher::FindComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 504 | component_.MakeInner(v); | ~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:667:49: required from 'boost::optional > omnigraph::simplification::relative_coverage::component_remover::RelativeCovComponentFinder::operator()(EdgeId) const [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]' 667 | if (component_searcher.FindComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:720:61: required from 'omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover::RelativeCoverageComponentRemover(Graph&, size_t, const omnigraph::FlankingCoverage&, double, size_t, size_t, size_t, double, HandlerF, size_t, std::string) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int; HandlerF = std::function, std::allocator >&)>; std::string = std::__cxx11::basic_string]' 720 | [&](EdgeId e) { return static_cast(finder_(e)); }, chunk_cnt); | ~~~~~~~^~~ /usr/include/c++/14/bits/stl_construct.h:119:7: required from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, function, allocator >&)>&, const long unsigned int&, __cxx11::basic_string, allocator >&}]' 119 | ::new((void*)__p) _Tp(std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/alloc_traits.h:706:19: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/c++/14/bits/shared_ptr_base.h:969:16: required from 'std::__shared_count<_Lp>::__shared_count(_Tp*&, std::_Sp_alloc_shared_tag<_Alloc>, _Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 969 | auto __pi = ::new (__mem) | ^~~~~~~~~~~~~ 970 | _Sp_cp_type(__a._M_a, std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr_base.h:1713:14: required from 'std::__shared_ptr<_Tp, _Lp>::__shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 1713 | : _M_ptr(), _M_refcount(_M_ptr, __tag, std::forward<_Args>(__args)...) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr.h:463:59: required from 'std::shared_ptr<_Tp>::shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover]' 463 | : __shared_ptr<_Tp>(__tag, std::forward<_Args>(__args)...) | ^ /usr/include/c++/14/bits/shared_ptr.h:1007:14: required from 'std::shared_ptr::value), _Tp>::type> std::make_shared(_Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, function, allocator >&)>&, const long unsigned int&, __cxx11::basic_string, allocator >&}; typename enable_if<(! is_array<_Tp>::value), _Tp>::type = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover]' 1007 | return shared_ptr<_Tp>(_Sp_alloc_shared_tag<_Alloc>{__a}, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1008 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:431:49: required from 'omnigraph::AlgoPtr debruijn::simplification::RelativeCoverageComponentRemoverInstance(Graph&, const omnigraph::FlankingCoverage&, const debruijn_graph::config::debruijn_config::simplification::relative_coverage_comp_remover&, const SimplifInfoContainer&, typename omnigraph::ComponentRemover::HandlerF) [with Graph = debruijn_graph::DeBruijnGraph; omnigraph::AlgoPtr = std::shared_ptr >; typename omnigraph::ComponentRemover::HandlerF = std::function, std::allocator >&)>]' 430 | return std::make_shared>(g, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ 432 | info.chunk_cnt(), | ~~~~~~~~~~~~~~~~~ 433 | flanking_cov, | ~~~~~~~~~~~~~ 434 | rcc_config.coverage_gap, | ~~~~~~~~~~~~~~~~~~~~~~~~ 435 | size_t(double(info.read_length()) * rcc_config.length_coeff), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 436 | size_t(double(info.read_length()) * rcc_config.tip_allowing_length_coeff), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 | connecting_path_length_bound, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 | max_coverage, | ~~~~~~~~~~~~~ 439 | removal_handler, rcc_config.vertex_count_limit, pics_dir); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier/simplification.hpp:157:65: required from here 157 | algo.AddAlgo(RelativeCoverageComponentRemoverInstance(graph, flanking_cov, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 158 | rcc_config(rel_cov_proc_enabled), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | simplif_info, set_removal_handler_f), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:53:16: warning: unused variable 'cnt' [-Wunused-variable] 53 | size_t cnt = border_.erase(v); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/sequence_mapper.hpp:18, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/form_truealignments.cpp:20: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp: In instantiation of 'void debruijn_graph::KmerMapper::HandleGlue(EdgeId, EdgeId, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:147:10: required from here 147 | void HandleGlue(EdgeId new_edge, EdgeId edge1, EdgeId edge2) override { | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:147:28: warning: unused parameter 'new_edge' [-Wunused-parameter] 147 | void HandleGlue(EdgeId new_edge, EdgeId edge1, EdgeId edge2) override { | ~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/spaligner/form_truealignments.cpp:21: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/toolchain/utils.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/gsimplifier/main.cpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /usr/include/string.h:548, from /usr/include/c++/14/cstring:43, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/mpmc_bounded.hpp:44, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/read_processor.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:12: In function 'void* memcpy(void*, const void*, size_t)', inlined from 'xxh_u64 XXH_read64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1630:11, inlined from 'xxh_u64 XXH_readLE64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1687:34, inlined from 'xxh_u64 XXH3_mix16B(const xxh_u8*, const xxh_u8*, xxh_u64)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2873:46, inlined from 'XXH64_hash_t XXH3_len_17to128_64b(const xxh_u8*, size_t, const xxh_u8*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2895:39, inlined from 'XXH64_hash_t XXH3_64bits_internal(const void*, size_t, XXH64_hash_t, const void*, size_t, XXH3_hashLong64_f)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3852:36, inlined from 'XXH64_hash_t XXH_INLINE_XXH3_64bits_withSeed(const void*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3875:32, inlined from 'static size_t RuntimeSeq::GetHash(const DataType*, size_t, uint64_t) [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:682:36, inlined from 'size_t RuntimeSeq::GetHash(uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:686:23, inlined from 'size_t RuntimeSeq::hash::operator()(const RuntimeSeq&, uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:691:31, inlined from 'size_t kmer::KMerSegmentPolicy::operator()(const Seq&) const [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_buckets.hpp:32:45, inlined from 'bool kmers::KMerSortingSplitter::push_back_internal(const Seq&, unsigned int) [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_splitter.hpp:115:35, inlined from 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:78:51: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: array subscript 6 is outside array bounds of 'RtSeq [1]' {aka 'RuntimeSeq<128> [1]'} [-Warray-bounds=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp: In member function 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:75:17: note: at offset 48 into object 'kmer' of size 40 75 | RtSeq kmer = seq.start(this->K_) >> 'A'; | ^~~~ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'xxh_u64 XXH_read64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1630:11, inlined from 'xxh_u64 XXH_readLE64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1687:34, inlined from 'xxh_u64 XXH3_mix16B(const xxh_u8*, const xxh_u8*, xxh_u64)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2874:46, inlined from 'XXH64_hash_t XXH3_len_17to128_64b(const xxh_u8*, size_t, const xxh_u8*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2895:39, inlined from 'XXH64_hash_t XXH3_64bits_internal(const void*, size_t, XXH64_hash_t, const void*, size_t, XXH3_hashLong64_f)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3852:36, inlined from 'XXH64_hash_t XXH_INLINE_XXH3_64bits_withSeed(const void*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3875:32, inlined from 'static size_t RuntimeSeq::GetHash(const DataType*, size_t, uint64_t) [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:682:36, inlined from 'size_t RuntimeSeq::GetHash(uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:686:23, inlined from 'size_t RuntimeSeq::hash::operator()(const RuntimeSeq&, uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:691:31, inlined from 'size_t kmer::KMerSegmentPolicy::operator()(const Seq&) const [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_buckets.hpp:32:45, inlined from 'bool kmers::KMerSortingSplitter::push_back_internal(const Seq&, unsigned int) [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_splitter.hpp:115:35, inlined from 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:78:51: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: array subscript 7 is outside array bounds of 'RtSeq [1]' {aka 'RuntimeSeq<128> [1]'} [-Warray-bounds=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp: In member function 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:75:17: note: at offset 56 into object 'kmer' of size 40 75 | RtSeq kmer = seq.start(this->K_) >> 'A'; | ^~~~ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'xxh_u64 XXH_read64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1630:11, inlined from 'xxh_u64 XXH_readLE64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1687:34, inlined from 'xxh_u64 XXH3_mix16B(const xxh_u8*, const xxh_u8*, xxh_u64)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2873:46, inlined from 'XXH64_hash_t XXH3_len_17to128_64b(const xxh_u8*, size_t, const xxh_u8*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2896:39, inlined from 'XXH64_hash_t XXH3_64bits_internal(const void*, size_t, XXH64_hash_t, const void*, size_t, XXH3_hashLong64_f)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3852:36, inlined from 'XXH64_hash_t XXH_INLINE_XXH3_64bits_withSeed(const void*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3875:32, inlined from 'static size_t RuntimeSeq::GetHash(const DataType*, size_t, uint64_t) [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:682:36, inlined from 'size_t RuntimeSeq::GetHash(uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:686:23, inlined from 'size_t RuntimeSeq::hash::operator()(const RuntimeSeq&, uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:691:31, inlined from 'size_t kmer::KMerSegmentPolicy::operator()(const Seq&) const [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_buckets.hpp:32:45, inlined from 'bool kmers::KMerSortingSplitter::push_back_internal(const Seq&, unsigned int) [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_splitter.hpp:115:35, inlined from 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:78:51: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: array subscript 'long unsigned int[4]' is partly outside array bounds of 'RtSeq [1]' {aka 'RuntimeSeq<128> [1]'} [-Warray-bounds=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp: In member function 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:75:17: note: at offset [33, 40] into object 'kmer' of size 40 75 | RtSeq kmer = seq.start(this->K_) >> 'A'; | ^~~~ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'xxh_u64 XXH_read64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1630:11, inlined from 'xxh_u64 XXH_readLE64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1687:34, inlined from 'xxh_u64 XXH3_mix16B(const xxh_u8*, const xxh_u8*, xxh_u64)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2874:46, inlined from 'XXH64_hash_t XXH3_len_17to128_64b(const xxh_u8*, size_t, const xxh_u8*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2896:39, inlined from 'XXH64_hash_t XXH3_64bits_internal(const void*, size_t, XXH64_hash_t, const void*, size_t, XXH3_hashLong64_f)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3852:36, inlined from 'XXH64_hash_t XXH_INLINE_XXH3_64bits_withSeed(const void*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3875:32, inlined from 'static size_t RuntimeSeq::GetHash(const DataType*, size_t, uint64_t) [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:682:36, inlined from 'size_t RuntimeSeq::GetHash(uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:686:23, inlined from 'size_t RuntimeSeq::hash::operator()(const RuntimeSeq&, uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:691:31, inlined from 'size_t kmer::KMerSegmentPolicy::operator()(const Seq&) const [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_buckets.hpp:32:45, inlined from 'bool kmers::KMerSortingSplitter::push_back_internal(const Seq&, unsigned int) [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_splitter.hpp:115:35, inlined from 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:78:51: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: array subscript [5, 6] is outside array bounds of 'RtSeq [1]' {aka 'RuntimeSeq<128> [1]'} [-Warray-bounds=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp: In member function 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:75:17: note: at offset [41, 48] into object 'kmer' of size 40 75 | RtSeq kmer = seq.start(this->K_) >> 'A'; | ^~~~ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'xxh_u64 XXH_read64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1630:11, inlined from 'xxh_u64 XXH_readLE64(const void*)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:1687:34, inlined from 'xxh_u64 XXH3_mix16B(const xxh_u8*, const xxh_u8*, xxh_u64)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2874:46, inlined from 'XXH64_hash_t XXH3_len_17to128_64b(const xxh_u8*, size_t, const xxh_u8*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:2898:35, inlined from 'XXH64_hash_t XXH3_64bits_internal(const void*, size_t, XXH64_hash_t, const void*, size_t, XXH3_hashLong64_f)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3852:36, inlined from 'XXH64_hash_t XXH_INLINE_XXH3_64bits_withSeed(const void*, size_t, XXH64_hash_t)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/xxh/xxhash.h:3875:32, inlined from 'static size_t RuntimeSeq::GetHash(const DataType*, size_t, uint64_t) [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:682:36, inlined from 'size_t RuntimeSeq::GetHash(uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:686:23, inlined from 'size_t RuntimeSeq::hash::operator()(const RuntimeSeq&, uint64_t) const [with long unsigned int max_size_ = 128; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:691:31, inlined from 'size_t kmer::KMerSegmentPolicy::operator()(const Seq&) const [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_buckets.hpp:32:45, inlined from 'bool kmers::KMerSortingSplitter::push_back_internal(const Seq&, unsigned int) [with Seq = RuntimeSeq<128>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/kmer_mph/kmer_splitter.hpp:115:35, inlined from 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:78:51: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: array subscript 5 is outside array bounds of 'RtSeq [1]' {aka 'RuntimeSeq<128> [1]'} [-Warray-bounds=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp: In member function 'bool ParallelSortingSplitter::BufferFiller::operator()(std::unique_ptr)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/projects/kmercount/main.cpp:75:17: note: at offset 40 into object 'kmer' of size 40 75 | RtSeq kmer = seq.start(this->K_) >> 'A'; | ^~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:18: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp: In instantiation of 'omnigraph::ParallelBulgeRemover::SmartEdgeSet omnigraph::ParallelBulgeRemover::RetainIndependentBulges(std::vector&) const [with Graph = debruijn_graph::DeBruijnGraph; SmartEdgeSet = omnigraph::SmartSetIterator >]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:720:42: required from 'size_t omnigraph::ParallelBulgeRemover::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 720 | auto interacting_edges = RetainIndependentBulges(bulges); | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:677:12: required from here 677 | size_t Run(bool force_primary_launch, double /*iter_run_progress*/) override { | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:581:16: warning: unused variable 'total_cnt' [-Wunused-variable] 581 | size_t total_cnt = bulges.size(); | ^~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = omnigraph::LengthComparator]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap >]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::LengthComparator]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::LengthComparator; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:353:12: required from here 353 | size_t Run(bool force_primary_launch = false, | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:353:12: required from here 353 | size_t Run(bool force_primary_launch = false, | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap >]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:353:12: required from here 353 | size_t Run(bool force_primary_launch = false, | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable ../../bin/spades-core cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spades && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-core.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../bin/spades-corrector-core cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/corrector && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-corrector-core.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-corrector-core.dir/link.d "CMakeFiles/spades-corrector-core.dir/positional_read.cpp.o" "CMakeFiles/spades-corrector-core.dir/interesting_pos_processor.cpp.o" "CMakeFiles/spades-corrector-core.dir/contig_processor.cpp.o" "CMakeFiles/spades-corrector-core.dir/dataset_processor.cpp.o" "CMakeFiles/spades-corrector-core.dir/config_struct.cpp.o" "CMakeFiles/spades-corrector-core.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-corrector-core ../../common/io/libinput.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/io/binary/libbinary_io.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target spades-corrector-core In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [ 96%] Linking CXX executable ../../bin/spades-kmer-estimating cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-kmer-estimating.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-kmer-estimating.dir/link.d "CMakeFiles/spades-kmer-estimating.dir/kmer_estimating.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-kmer-estimating ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target spades-kmer-estimating /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-core.dir/link.d "CMakeFiles/spades-core.dir/pipeline.cpp.o" "CMakeFiles/spades-core.dir/main.cpp.o" "CMakeFiles/spades-core.dir/series_analysis.cpp.o" "CMakeFiles/spades-core.dir/__/mts/contig_abundance.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-core libspades-stages.a ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/hmm/libhmmercpp.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/ConsensusCore/libConsensusCore.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so ../../ext/hmmer/libhmmer.a ../../ext/easel/libeasel.a -lm make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target spades-core [ 96%] Linking CXX executable ../../bin/spades-convert-bin-to-fasta cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_converter && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-convert-bin-to-fasta.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../bin/spades-truseq-scfcorrection cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/scaffold_correction && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-truseq-scfcorrection.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-convert-bin-to-fasta.dir/link.d "CMakeFiles/spades-convert-bin-to-fasta.dir/convert_bin_to_fasta.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-convert-bin-to-fasta ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target spades-convert-bin-to-fasta [ 97%] Linking CXX executable ../../bin/spades-hammer cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/hammer && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-hammer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-truseq-scfcorrection.dir/link.d "CMakeFiles/spades-truseq-scfcorrection.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-truseq-scfcorrection ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target spades-truseq-scfcorrection /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-hammer.dir/link.d "CMakeFiles/spades-hammer.dir/main.cpp.o" "CMakeFiles/spades-hammer.dir/hammer_tools.cpp.o" "CMakeFiles/spades-hammer.dir/hamcluster.cpp.o" "CMakeFiles/spades-hammer.dir/kmer_cluster.cpp.o" "CMakeFiles/spades-hammer.dir/kmer_data.cpp.o" "CMakeFiles/spades-hammer.dir/config_struct_hammer.cpp.o" "CMakeFiles/spades-hammer.dir/read_corrector.cpp.o" "CMakeFiles/spades-hammer.dir/expander.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-hammer ../../common/libcommon_modules.a ../../common/io/libinput.a ../../common/utils/libutils.a ../../common/pipeline/libpipeline.a ../../ext/gqf/libgqf.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../ext/gqf/libgqf.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target spades-hammer /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [ 98%] Linking CXX executable ../../bin/spades-read-filter cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-read-filter.dir/link.txt --verbose=1 /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-read-filter.dir/link.d "CMakeFiles/spades-read-filter.dir/read_filter.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-read-filter ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target spades-read-filter In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [ 98%] Linking CXX executable ../../bin/spades-kmercount cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/kmercount && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-kmercount.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-kmercount.dir/link.d "CMakeFiles/spades-kmercount.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-kmercount ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target spades-kmercount [ 98%] Linking CXX executable ../../bin/unitig-coverage cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/unitig_coverage && /usr/bin/cmake -E cmake_link_script CMakeFiles/unitig-coverage.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../bin/form_truealignments cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner && /usr/bin/cmake -E cmake_link_script CMakeFiles/form_truealignments.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/form_truealignments.dir/link.d CMakeFiles/form_truealignments.dir/form_truealignments.cpp.o "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/form_truealignments ../../common/libcommon_modules.a -lbwa ../../ext/edlib/libedlib.a ../../common/io/graph/libgraphio.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a -lbwa ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a ../../ext/gfa1/libgfa1.a /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target form_truealignments /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/unitig-coverage.dir/link.d "CMakeFiles/unitig-coverage.dir/main.cpp.o" "CMakeFiles/unitig-coverage.dir/profile_storage.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/unitig-coverage ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target unitig-coverage [ 98%] Linking CXX executable ../../bin/spades-gmapper cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gmapper && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-gmapper.dir/link.txt --verbose=1 [100%] Linking CXX executable ../../bin/cds-subgraphs cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/cds-subgraphs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-gmapper.dir/link.d "CMakeFiles/spades-gmapper.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-gmapper ../spades/libspades-stages.a ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/ConsensusCore/libConsensusCore.a ../../ext/easel/libeasel.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target spades-gmapper [100%] Linking CXX executable ../../bin/spaligner cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/spaligner && /usr/bin/cmake -E cmake_link_script CMakeFiles/spaligner.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spaligner.dir/link.d CMakeFiles/spaligner.dir/align_longreads.cpp.o "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spaligner libmapping_printer.a ../../common/libcommon_modules.a -lbwa ../../ext/edlib/libedlib.a ../../common/io/graph/libgraphio.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a -lbwa ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a ../../ext/gfa1/libgfa1.a /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target spaligner /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cds-subgraphs.dir/link.d "CMakeFiles/cds-subgraphs.dir/stop_condon_finder.cpp.o" "CMakeFiles/cds-subgraphs.dir/subgraph_extraction.cpp.o" "CMakeFiles/cds-subgraphs.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/cds-subgraphs ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target cds-subgraphs /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable ../../bin/cds-mapping-stats cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/cds_subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/cds-mapping-stats.dir/link.txt --verbose=1 In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cds-mapping-stats.dir/link.d "CMakeFiles/cds-mapping-stats.dir/stats.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/cds-mapping-stats ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [100%] Built target cds-mapping-stats /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [100%] Linking CXX executable ../../bin/spades-gbuilder cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gbuilder && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-gbuilder.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-gbuilder.dir/link.d "CMakeFiles/spades-gbuilder.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-gbuilder ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target spades-gbuilder [100%] Linking CXX executable ../../bin/mag-improve cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/bin_analysis && /usr/bin/cmake -E cmake_link_script CMakeFiles/mag-improve.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/mag-improve.dir/link.d "CMakeFiles/mag-improve.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/mag-improve ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target mag-improve [100%] Linking CXX executable ../../bin/spades-gsimplifier cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/projects/gsimplifier && /usr/bin/cmake -E cmake_link_script CMakeFiles/spades-gsimplifier.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/spades-gsimplifier.dir/link.d "CMakeFiles/spades-gsimplifier.dir/__/unitig_coverage/profile_storage.cpp.o" "CMakeFiles/spades-gsimplifier.dir/main.cpp.o" "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/spades-gsimplifier ../../common/io/graph/libgraphio.a ../../common/libcommon_modules.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/gfa1/libgfa1.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target spades-gsimplifier make[3]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 debruijn_test make[3]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -B/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/CMakeFiles 42 make -f CMakeFiles/Makefile2 test/debruijn/CMakeFiles/debruijn_test.dir/all make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/coverage_model/CMakeFiles/coverage_model.dir/build.make common/modules/coverage_model/CMakeFiles/coverage_model.dir/depend make -f ext/mimalloc/CMakeFiles/mimalloc-obj.dir/build.make ext/mimalloc/CMakeFiles/mimalloc-obj.dir/depend make -f ext/bamtools/api/CMakeFiles/BamTools.dir/build.make ext/bamtools/api/CMakeFiles/BamTools.dir/depend make -f ext/cppformat/CMakeFiles/format.dir/build.make ext/cppformat/CMakeFiles/format.dir/depend make -f ext/llvm/CMakeFiles/llvm-support.dir/build.make ext/llvm/CMakeFiles/llvm-support.dir/depend make -f ext/gqf/CMakeFiles/gqf.dir/build.make ext/gqf/CMakeFiles/gqf.dir/depend make -f ext/edlib/CMakeFiles/edlib.dir/build.make ext/edlib/CMakeFiles/edlib.dir/depend make -f ext/googletest/googletest/CMakeFiles/gtest.dir/build.make ext/googletest/googletest/CMakeFiles/gtest.dir/depend make -f common/io/binary/CMakeFiles/binary_io.dir/build.make common/io/binary/CMakeFiles/binary_io.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/coverage_model /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model/CMakeFiles/coverage_model.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/mimalloc /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/mimalloc/CMakeFiles/mimalloc-obj.dir/DependInfo.cmake "--color=" make -f common/utils/CMakeFiles/version.dir/build.make common/utils/CMakeFiles/version.dir/depend make -f common/paired_info/CMakeFiles/paired_info.dir/build.make common/paired_info/CMakeFiles/paired_info.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/cppformat /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat/CMakeFiles/format.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/bamtools/api /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/edlib /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib/CMakeFiles/edlib.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf/CMakeFiles/gqf.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest/CMakeFiles/gtest.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/binary /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/binary/CMakeFiles/binary_io.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/version.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/llvm /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/paired_info /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info/CMakeFiles/paired_info.dir/DependInfo.cmake "--color=" Dependencies file "ext/gqf/CMakeFiles/gqf.dir/gqf.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf/CMakeFiles/gqf.dir/compiler_depend.internal". Dependencies file "ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/mimalloc/CMakeFiles/mimalloc-obj.dir/compiler_depend.internal". Dependencies file "common/modules/coverage_model/CMakeFiles/coverage_model.dir/kmer_coverage_model.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model/CMakeFiles/coverage_model.dir/compiler_depend.internal". Dependencies file "ext/cppformat/CMakeFiles/format.dir/format.cc.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat/CMakeFiles/format.dir/compiler_depend.internal". Dependencies file "common/io/binary/CMakeFiles/binary_io.dir/genomic_info.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/binary/CMakeFiles/binary_io.dir/compiler_depend.internal". Dependencies file "ext/edlib/CMakeFiles/edlib.dir/edlib.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/edlib/CMakeFiles/edlib.dir/compiler_depend.internal". Dependencies file "ext/googletest/googletest/CMakeFiles/gtest.dir/src/gtest-all.cc.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/googletest/googletest/CMakeFiles/gtest.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/bgzf.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/block.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/cppformat/CMakeFiles/format.dir/posix.cc.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat/CMakeFiles/format.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/consumer.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/knetfile.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/regcomp.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/pbgzf.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/regerror.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/queue.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/regexec.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/reader.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/regfree.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/regstrlcpy.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/util.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/APFloat.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/pbgzf/writer.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". 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Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/APInt.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/BamAlignment.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/BamMultiReader.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/Atomic.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". 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Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/BamWriter.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/Debug.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/SamHeader.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "common/paired_info/CMakeFiles/paired_info.dir/weighted_distance_estimation.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/paired_info/CMakeFiles/paired_info.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/Errno.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/SamProgram.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". 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Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequence.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/LineIterator.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/SamSequenceDictionary.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". 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Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/bam/BamWriter_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/Path.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/index/BamIndexFactory_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". 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Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BamFile_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/Signals.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/BgzfStream_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". 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Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ByteArray_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/StringMap.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ILocalIODevice_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/StringRef.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/ParallelBgzfStream_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/StringSaver.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/RollingBuffer_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/io/SerialBgzfStream_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/ThreadLocal.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". 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Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/TimeProfiler.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/sam/SamHeaderValidator_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/Twine.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/bamtools/api/CMakeFiles/BamTools.dir/internal/utils/BamException_p.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/bamtools/api/CMakeFiles/BamTools.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/Unicode.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/WithColor.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/YAMLParser.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/YAMLTraits.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/raw_os_ostream.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Dependencies file "ext/llvm/CMakeFiles/llvm-support.dir/raw_ostream.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/llvm/CMakeFiles/llvm-support.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target version Consolidate compiler generated dependencies of target mimalloc-obj Consolidate compiler generated dependencies of target gqf Consolidate compiler generated dependencies of target binary_io Consolidate compiler generated dependencies of target paired_info Consolidate compiler generated dependencies of target edlib Consolidate compiler generated dependencies of target gtest Consolidate compiler generated dependencies of target format Consolidate compiler generated dependencies of target BamTools Consolidate compiler generated dependencies of target coverage_model make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory 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ext/bamtools/api/CMakeFiles/BamTools.dir/build make -f common/modules/coverage_model/CMakeFiles/coverage_model.dir/build.make common/modules/coverage_model/CMakeFiles/coverage_model.dir/build make -f ext/cppformat/CMakeFiles/format.dir/build.make ext/cppformat/CMakeFiles/format.dir/build make -f ext/gqf/CMakeFiles/gqf.dir/build.make ext/gqf/CMakeFiles/gqf.dir/build make -f ext/edlib/CMakeFiles/edlib.dir/build.make ext/edlib/CMakeFiles/edlib.dir/build make -f ext/googletest/googletest/CMakeFiles/gtest.dir/build.make ext/googletest/googletest/CMakeFiles/gtest.dir/build make -f common/io/binary/CMakeFiles/binary_io.dir/build.make common/io/binary/CMakeFiles/binary_io.dir/build make -f common/utils/CMakeFiles/version.dir/build.make common/utils/CMakeFiles/version.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/mimalloc/CMakeFiles/mimalloc-obj.dir/build'. make[5]: Leaving directory 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for 'common/modules/coverage_model/CMakeFiles/coverage_model.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/io/binary/CMakeFiles/binary_io.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/bamtools/api/CMakeFiles/BamTools.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 2%] Built target mimalloc-obj [ 9%] Built target edlib [ 9%] Built target version [ 9%] Built target format [ 9%] Built target paired_info [ 11%] Built target gqf make -f common/utils/CMakeFiles/utils.dir/build.make common/utils/CMakeFiles/utils.dir/depend make -f common/sequence/CMakeFiles/sequence.dir/build.make common/sequence/CMakeFiles/sequence.dir/depend [ 11%] Built target gtest [ 11%] Built target coverage_model make -f ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build.make ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/teamcity_gtest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/DependInfo.cmake "--color=" [ 11%] Built target binary_io [ 30%] Built target BamTools make -f ext/samtools/CMakeFiles/samtools.dir/build.make ext/samtools/CMakeFiles/samtools.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends 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Dependencies file "common/utils/CMakeFiles/utils.dir/filesystem/copy_file.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/compiler_depend.internal". Dependencies file "ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/teamcity_gtest.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/compiler_depend.internal". Dependencies file "common/utils/CMakeFiles/utils.dir/filesystem/glob.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/compiler_depend.internal". Dependencies file "ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/teamcity_messages.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/compiler_depend.internal". Dependencies file "common/utils/CMakeFiles/utils.dir/filesystem/path_helper.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/compiler_depend.internal". Dependencies file "common/utils/CMakeFiles/utils.dir/filesystem/temporary.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/compiler_depend.internal". Dependencies file "common/utils/CMakeFiles/utils.dir/logger/logger_impl.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/compiler_depend.internal". Dependencies file "common/utils/CMakeFiles/utils.dir/memory_limit.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_aux.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_cat.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_import.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_index.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_lpileup.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_md.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_pileup.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_reheader.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bam_sort.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/bedidx.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/faidx.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/kprobaln.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/kstring.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/razf.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/sam.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Dependencies file "ext/samtools/CMakeFiles/samtools.dir/sam_header.c.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target sequence Consolidate compiler generated dependencies of target teamcity_gtest Consolidate compiler generated dependencies of target utils Consolidate compiler generated dependencies of target samtools Consolidate compiler generated dependencies of target llvm-support make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/utils/CMakeFiles/utils.dir/build.make common/utils/CMakeFiles/utils.dir/build make -f common/sequence/CMakeFiles/sequence.dir/build.make common/sequence/CMakeFiles/sequence.dir/build make -f ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build.make ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build make -f ext/samtools/CMakeFiles/samtools.dir/build.make ext/samtools/CMakeFiles/samtools.dir/build make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/llvm/CMakeFiles/llvm-support.dir/build.make ext/llvm/CMakeFiles/llvm-support.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/sequence/CMakeFiles/sequence.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/samtools/CMakeFiles/samtools.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/utils/CMakeFiles/utils.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/llvm/CMakeFiles/llvm-support.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 35%] Built target teamcity_gtest [ 42%] Built target utils [ 42%] Built target sequence [ 54%] Built target samtools [ 64%] Built target llvm-support make -f common/io/CMakeFiles/input.dir/build.make common/io/CMakeFiles/input.dir/depend make -f common/assembly_graph/CMakeFiles/assembly_graph.dir/build.make common/assembly_graph/CMakeFiles/assembly_graph.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/DependInfo.cmake "--color=" Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/__/modules/alignment/edge_index_refiller.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/dataset_support/dataset_readers.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/components/connected_component.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/dataset_support/read_converter.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/core/id_distributor.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/reads/binary_converter.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/graph_support/coverage_uniformity_analyzer.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/reads/binary_streams.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/reads/io_helper.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/graph_support/scaff_supplementary.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/reads/paired_readers.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/reads/parser.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/sam/read.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/io/CMakeFiles/input.dir/sam/sam_reader.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/compiler_depend.internal". Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/bidirectional_path_output.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Dependencies file "common/assembly_graph/CMakeFiles/assembly_graph.dir/paths/bidirectional_path_io/io_support.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target input Consolidate compiler generated dependencies of target assembly_graph make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/io/CMakeFiles/input.dir/build.make common/io/CMakeFiles/input.dir/build make -f common/assembly_graph/CMakeFiles/assembly_graph.dir/build.make common/assembly_graph/CMakeFiles/assembly_graph.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/io/CMakeFiles/input.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/assembly_graph/CMakeFiles/assembly_graph.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 69%] Built target input [ 73%] Built target assembly_graph make -f common/modules/path_extend/CMakeFiles/path_extend.dir/build.make common/modules/path_extend/CMakeFiles/path_extend.dir/depend make -f common/modules/CMakeFiles/modules.dir/build.make common/modules/CMakeFiles/modules.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/DependInfo.cmake "--color=" Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/bwa_index.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/gap_analyzer.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/gap_info.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/loop_detector.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/long_read_mapper.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/loop_traverser.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/pacbio/g_aligner.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/pacbio/gap_dijkstra.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/overlap_remover.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/pacbio/gap_filler.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/path_extenders.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/sequence_mapper.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/pe_config_struct.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/alignment/sequence_mapper_notifier.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/chromosome_remover.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/pe_resolver.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/extenders_logic.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/CMakeFiles/modules.dir/genome_consistance_checker.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/launch_support.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/pipeline/launcher.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/connection_condition2015.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/extension_chooser2015.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/path_polisher.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_constructor.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Dependencies file "common/modules/path_extend/CMakeFiles/path_extend.dir/scaffolder2015/scaffold_graph_visualizer.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target modules Consolidate compiler generated dependencies of target path_extend make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/CMakeFiles/modules.dir/build.make common/modules/CMakeFiles/modules.dir/build make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/path_extend/CMakeFiles/path_extend.dir/build.make common/modules/path_extend/CMakeFiles/path_extend.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/modules/CMakeFiles/modules.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/modules/path_extend/CMakeFiles/path_extend.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 80%] Built target modules [ 88%] Built target path_extend make -f common/pipeline/CMakeFiles/pipeline.dir/build.make common/pipeline/CMakeFiles/pipeline.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/DependInfo.cmake "--color=" Dependencies file "common/pipeline/CMakeFiles/pipeline.dir/config_struct.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/compiler_depend.internal". Dependencies file "common/pipeline/CMakeFiles/pipeline.dir/graph_pack.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/compiler_depend.internal". Dependencies file "common/pipeline/CMakeFiles/pipeline.dir/library.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/compiler_depend.internal". Dependencies file "common/pipeline/CMakeFiles/pipeline.dir/library_data.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/compiler_depend.internal". Dependencies file "common/pipeline/CMakeFiles/pipeline.dir/stage.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target pipeline make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/pipeline/CMakeFiles/pipeline.dir/build.make common/pipeline/CMakeFiles/pipeline.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/pipeline/CMakeFiles/pipeline.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target pipeline make -f common/stages/CMakeFiles/stages.dir/build.make common/stages/CMakeFiles/stages.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/DependInfo.cmake "--color=" Dependencies file "common/stages/CMakeFiles/stages.dir/construction.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/compiler_depend.internal". Dependencies file "common/stages/CMakeFiles/stages.dir/genomic_info_filler.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/compiler_depend.internal". Dependencies file "common/stages/CMakeFiles/stages.dir/read_conversion.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/compiler_depend.internal". Dependencies file "common/stages/CMakeFiles/stages.dir/simplification.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/compiler_depend.internal". Dependencies file "common/stages/CMakeFiles/stages.dir/ss_edge_split.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target stages make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/stages/CMakeFiles/stages.dir/build.make common/stages/CMakeFiles/stages.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/stages/CMakeFiles/stages.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 92%] Built target stages make -f common/CMakeFiles/common_modules.dir/build.make common/CMakeFiles/common_modules.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/CMakeFiles/common_modules.dir/DependInfo.cmake "--color=" Dependencies file "common/CMakeFiles/common_modules.dir/adt/concurrent_dsu.cpp.o.d" is newer than depends file "/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/CMakeFiles/common_modules.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target common_modules make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/CMakeFiles/common_modules.dir/build.make common/CMakeFiles/common_modules.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/CMakeFiles/common_modules.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 92%] Built target common_modules make -f test/debruijn/CMakeFiles/debruijn_test.dir/build.make test/debruijn/CMakeFiles/debruijn_test.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn/CMakeFiles/debruijn_test.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f test/debruijn/CMakeFiles/debruijn_test.dir/build.make test/debruijn/CMakeFiles/debruijn_test.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 95%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/graph_core_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/graph_core_test.cpp.o -MF CMakeFiles/debruijn_test.dir/graph_core_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/graph_core_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_core_test.cpp [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/test_utils.cpp.o [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/simplification_test.cpp.o [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/overlap_analysis_test.cpp.o [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/histogram_test.cpp.o [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/construction_test.cpp.o [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/io_test.cpp.o [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/paired_info_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/test_utils.cpp.o -MF CMakeFiles/debruijn_test.dir/test_utils.cpp.o.d -o CMakeFiles/debruijn_test.dir/test_utils.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test_utils.cpp [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/path_extend_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/histogram_test.cpp.o -MF CMakeFiles/debruijn_test.dir/histogram_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/histogram_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/histogram_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/paired_info_test.cpp.o -MF CMakeFiles/debruijn_test.dir/paired_info_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/paired_info_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/paired_info_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/overlap_analysis_test.cpp.o -MF CMakeFiles/debruijn_test.dir/overlap_analysis_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/overlap_analysis_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/overlap_analysis_test.cpp [ 97%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/graphio.cpp.o [100%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/test.cpp.o [100%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/overlap_removal_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/simplification_test.cpp.o -MF CMakeFiles/debruijn_test.dir/simplification_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/simplification_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/simplification_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/construction_test.cpp.o -MF CMakeFiles/debruijn_test.dir/construction_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/construction_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/construction_test.cpp [100%] Building CXX object test/debruijn/CMakeFiles/debruijn_test.dir/graph_alignment_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/io_test.cpp.o -MF CMakeFiles/debruijn_test.dir/io_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/io_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/io_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/path_extend_test.cpp.o -MF CMakeFiles/debruijn_test.dir/path_extend_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/path_extend_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/path_extend_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/graphio.cpp.o -MF CMakeFiles/debruijn_test.dir/graphio.cpp.o.d -o CMakeFiles/debruijn_test.dir/graphio.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/overlap_removal_test.cpp.o -MF CMakeFiles/debruijn_test.dir/overlap_removal_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/overlap_removal_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/overlap_removal_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/graph_alignment_test.cpp.o -MF CMakeFiles/debruijn_test.dir/graph_alignment_test.cpp.o.d -o CMakeFiles/debruijn_test.dir/graph_alignment_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/debruijn/CMakeFiles/debruijn_test.dir/test.cpp.o -MF CMakeFiles/debruijn_test.dir/test.cpp.o.d -o CMakeFiles/debruijn_test.dir/test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_core_test.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/paired_info_test.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/overlap_remover.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/overlap_analysis_test.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/pe_resolver.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/overlap_removal_test.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/io_test.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp:1: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/construction_helper.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/construction_test.cpp:7: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test_utils.cpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp: In function 'void debruijn_graph::DeserializePoint(FILE*, size_t&, size_t&, omnigraph::de::RawPoint&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp:24:12: warning: unused variable 'read_count' [-Wunused-variable] 24 | size_t read_count = fscanf(file, "%zu %zu %f %f %f .\n", &e1, &e2, | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp: In function 'void debruijn_graph::DeserializePoint(FILE*, size_t&, size_t&, omnigraph::de::Point&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp:31:12: warning: unused variable 'read_count' [-Wunused-variable] 31 | size_t read_count = fscanf(file, "%zu %zu %f %f %f .\n", &e1, &e2, | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp: In member function 'bool debruijn_graph::LegacyTextIO::LoadGraph(const std::string&, debruijn_graph::Graph&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp:70:26: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 70 | VertexId new_id = graph.AddVertex(typename Graph::VertexData(), vid, conj_vid); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/paths/bidirectional_path_container.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/path_visualizer.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/path_extend_test.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp:128:24: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 128 | EdgeId new_id = graph.AddEdge(start_id, fin_id, Graph::EdgeData(tmp), eid, conj_eid); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_core_test.cpp:84:57: required from here 84 | for (auto it = g.SmartVertexBegin(); !it.IsEnd(); ++it) { | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp: In member function 'bool debruijn_graph::LegacyTextIO::LoadPositions(const std::string&, omnigraph::EdgesPositionHandler&)': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graphio.cpp:193:13: warning: variable 'read_count' set but not used [-Wunused-but-set-variable] 193 | int read_count = fscanf(file, "%zu\n", &pos_count); | ^~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/simplification_test.cpp:8: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor] 415 | ObservableGraph::~ObservableGraph() { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:415:30: note: remove the '< >' In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/io_test.cpp:46:38: required from here 46 | for (size_t i = 0; i < 5; ++i, ++it) | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/io_test.cpp:33:9: required from 'void CompareGraphIterators(I, I) [with I = omnigraph::SmartEdgeIterator, adt::identity>]' 33 | ++it1; | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/io_test.cpp:63:26: required from here 63 | CompareGraphIterators(graph.SmartEdgeBegin(), new_graph.SmartEdgeBegin()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp: In member function 'virtual void GraphAligner_TrivialTest_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp:104:29: warning: conversion from 'double' to 'float' changes value from '1.0000000000000001e-1' to '1.00000001e-1f' [-Wfloat-conversion] 104 | gap_cfg.penalty_ratio = 0.1; | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp:115:30: warning: conversion from 'double' to 'float' changes value from '1.0000000000000001e-1' to '1.00000001e-1f' [-Wfloat-conversion] 115 | ends_cfg.penalty_ratio = 0.1; | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp: In member function 'virtual void GraphAligner_DijkstraOneEdgeTest_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp:153:27: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 153 | if (g.int_id(*it) == eid_int){ | ~~~~~~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp: In member function 'virtual void GraphAligner_DijkstraGrowEndsTest_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp:183:27: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 183 | if (g.int_id(*it) == eid_int){ | ~~~~~~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/graph_alignment_test.cpp:191:29: warning: conversion from 'double' to 'float' changes value from '1.0000000000000001e-1' to '1.00000001e-1f' [-Wfloat-conversion] 191 | gap_cfg.penalty_ratio = 0.1; | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/io_test.cpp:10: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp: In instantiation of 'void debruijn_graph::KmerMapper::HandleGlue(EdgeId, EdgeId, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:147:10: required from here 147 | void HandleGlue(EdgeId new_edge, EdgeId edge1, EdgeId edge2) override { | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/alignment/kmer_mapper.hpp:147:28: warning: unused parameter 'new_edge' [-Wunused-parameter] 147 | void HandleGlue(EdgeId new_edge, EdgeId edge1, EdgeId edge2) override { | ~~~~~~~^~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:48:62: required from 'debruijn_graph::RandomGraphAccessor::EdgeId debruijn_graph::RandomGraphAccessor::GetRandomEdge() const [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]' 48 | for (auto it = graph_.SmartEdgeBegin(); !it.IsEnd(); ++it) { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:173:48: required from 'void debruijn_graph::RandomPairedIndex::RemoveRandomEdgeInfo() [with Index = omnigraph::de::PairedIndex]' 173 | this->value_.Remove(this->GetRandomEdge()); | ~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:184:13: required from 'void debruijn_graph::RandomPairedIndex::PerformRandomOperation() [with Index = omnigraph::de::PairedIndex]' 184 | RemoveRandomEdgeInfo(); | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:176:10: required from here 176 | void PerformRandomOperation() override { | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:40:13: required from 'debruijn_graph::RandomGraphAccessor::VertexId debruijn_graph::RandomGraphAccessor::GetRandomVertex() const [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 40 | ++it; | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:100:51: required from 'void debruijn_graph::RandomGraph::AddRandomEdge() [with Graph = debruijn_graph::DeBruijnGraph]' 100 | this->value_.AddEdge(this->GetRandomVertex(), this->GetRandomVertex(), | ~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:119:17: required from 'void debruijn_graph::RandomGraph::PerformRandomOperation() [with Graph = debruijn_graph::DeBruijnGraph]' 119 | AddRandomEdge(); | ^~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/random_graph.hpp:112:10: required from here 112 | void PerformRandomOperation() override { | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/construction_test.cpp:14: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp: In instantiation of 'void debruijn_graph::FastGraphFromSequencesConstructor::ConstructGraph(Graph&, const std::vector&) const [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:547:85: required from 'void debruijn_graph::DeBruijnGraphExtentionConstructor::ConstructGraph(bool) [with Graph = debruijn_graph::DeBruijnGraph]' 547 | FastGraphFromSequencesConstructor(kmer_size_, origin_).ConstructGraph(graph_, edge_sequences); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:59:23: required from 'debruijn_graph::KMerFiles debruijn_graph::ConstructGraphUsingExtensionIndex(const config::debruijn_config::construction&, fs::impl::TmpDir, io::ReadStreamList&, Graph&) [with Read = io::SingleRead; KMerFiles = kmers::KMerDiskStorage >; fs::impl::TmpDir = llvm::IntrusiveRefCntPtr; Graph = DeBruijnGraph]' 59 | g_c.ConstructGraph(params.keep_perfect_loops); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:68:45: required from 'debruijn_graph::KMerFiles debruijn_graph::ConstructGraph(const config::debruijn_config::construction&, fs::impl::TmpDir, Streams&, Graph&) [with Streams = io::ReadStreamList; KMerFiles = kmers::KMerDiskStorage >; fs::impl::TmpDir = llvm::IntrusiveRefCntPtr; Graph = DeBruijnGraph]' 68 | return ConstructGraphUsingExtensionIndex(params, workdir, streams, g); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:77:37: required from 'debruijn_graph::KMerFiles debruijn_graph::ConstructGraphWithIndex(const config::debruijn_config::construction&, fs::impl::TmpDir, Streams&, Graph&, EdgeIndex&) [with Streams = io::ReadStreamList; KMerFiles = kmers::KMerDiskStorage >; fs::impl::TmpDir = llvm::IntrusiveRefCntPtr; Graph = DeBruijnGraph]' 77 | KMerFiles kmers = ConstructGraph(params, workdir, streams, g); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/construction_test.cpp:75:28: required from here 75 | ConstructGraphWithIndex(config::debruijn_config::construction(), workdir, streams, graph, index); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:488:50: warning: conversion from 'std::vector::size_type' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 488 | graph.ereserve(size_t(2.01*sequences.size())); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:504:36: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 504 | graph.vreserve(size_t(2.01*size)); | ^~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test_utils.cpp:125:55: required from here 125 | for (auto it = g.SmartEdgeBegin(); !it.IsEnd(); ++it) { | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:13: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp: In instantiation of 'void debruijn_graph::FastGraphFromSequencesConstructor::ConstructGraph(Graph&, const std::vector&) const [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:547:85: required from 'void debruijn_graph::DeBruijnGraphExtentionConstructor::ConstructGraph(bool) [with Graph = debruijn_graph::DeBruijnGraph]' 547 | FastGraphFromSequencesConstructor(kmer_size_, origin_).ConstructGraph(graph_, edge_sequences); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:59:23: required from 'debruijn_graph::KMerFiles debruijn_graph::ConstructGraphUsingExtensionIndex(const config::debruijn_config::construction&, fs::impl::TmpDir, io::ReadStreamList&, Graph&) [with Read = io::SingleRead; KMerFiles = kmers::KMerDiskStorage >; fs::impl::TmpDir = llvm::IntrusiveRefCntPtr; Graph = DeBruijnGraph]' 59 | g_c.ConstructGraph(params.keep_perfect_loops); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/graph_construction.hpp:68:45: required from 'debruijn_graph::KMerFiles debruijn_graph::ConstructGraph(const config::debruijn_config::construction&, fs::impl::TmpDir, Streams&, Graph&) [with Streams = io::ReadStreamList; KMerFiles = kmers::KMerDiskStorage >; fs::impl::TmpDir = llvm::IntrusiveRefCntPtr; Graph = DeBruijnGraph]' 68 | return ConstructGraphUsingExtensionIndex(params, workdir, streams, g); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test_utils.cpp:138:19: required from here 138 | ConstructGraph(config::debruijn_config::construction(), workdir, streams, g); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:488:50: warning: conversion from 'std::vector::size_type' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 488 | graph.ereserve(size_t(2.01*sequences.size())); | ~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/construction/debruijn_graph_constructor.hpp:504:36: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] 504 | graph.vreserve(size_t(2.01*size)); | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::VertexId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::VertexId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::VertexId; Priority = adt::identity; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/simplification_test.cpp:275:16: required from here 275 | remover.Run(); | ~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = omnigraph::LengthComparator]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap >]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = omnigraph::ObservableGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::LengthComparator]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/graph_processing_algorithm.hpp:59:87: required from 'bool omnigraph::EdgeProcessingAlgorithm::Run(const Priority&, ProceedConditionT) [with Priority = omnigraph::LengthComparator; Graph = debruijn_graph::DeBruijnGraph; ProceedConditionT = func::TypedPredicate]' 59 | for (auto it = g_.SmartEdgeBegin(priority, conjugate_symmetry_); !it.IsEnd(); ++it) { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/single_cell_simplification.hpp:38:38: required from 'bool debruijn::simplification::RemoveErroneousEdgesInLengthOrder(Graph&, func::TypedPredicate, size_t, std::function) [with Graph = debruijn_graph::DeBruijnGraph; typename Graph::EdgeId = omnigraph::impl::EdgeId; size_t = long unsigned int; typename Graph::EdgeId = omnigraph::impl::EdgeId]' 38 | return erroneous_edge_remover.Run(omnigraph::LengthComparator(g), | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | omnigraph::LengthUpperBound(g, max_length)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/single_cell_simplification.hpp:56:45: required from 'bool debruijn::simplification::TopologyRemoveErroneousEdges(Graph&, const debruijn_graph::config::debruijn_config::simplification::topology_based_ec_remover&, std::function) [with Graph = debruijn_graph::DeBruijnGraph; typename Graph::EdgeId = omnigraph::impl::EdgeId]' 56 | return RemoveErroneousEdgesInLengthOrder(g, condition, max_length, removal_handler); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/simplification_test.cpp:222:72: required from here 222 | while(debruijn::simplification::TopologyRemoveErroneousEdges(g, tec_config, 0)) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph_pack.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/stats/picture_dump.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend/path_visualizer.hpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::Load(const std::string&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::string = std::__cxx11::basic_string]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:29:10: required from here 29 | bool Load(const std::string &basename, Graph &graph) override { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:30:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 30 | bool loaded = Base::Load(basename, graph); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp: In instantiation of 'bool io::binary::BasicGraphIO::BinRead(std::istream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph; std::istream = std::basic_istream]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:42:10: required from here 42 | bool BinRead(std::istream &is, Graph &graph) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:43:14: warning: variable 'loaded' set but not used [-Wunused-but-set-variable] 43 | bool loaded = Base::BinRead(is, graph); | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/basic.hpp:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp: In instantiation of 'void io::binary::GraphIO::LoadImpl(io::binary::impl::BinIStream&, Graph&) [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:46:10: required from here 46 | void LoadImpl(BinIStream &str, Graph &graph) override { | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:60:18: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 60 | auto new_id = graph.AddVertex(typename Graph::VertexData(), ids[0], ids[1]); | ^~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/binary/graph.hpp:82:22: warning: variable 'new_id' set but not used [-Wunused-but-set-variable] 82 | auto new_id = graph.AddEdge(start_ids[0], end_ids[0], | ^~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/chimera_stats.hpp:12, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp: In instantiation of 'void omnigraph::simplification::relative_coverage::Component::RemoveFromBorder(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:83:9: required from 'void omnigraph::simplification::relative_coverage::Component::MakeInner(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 83 | RemoveFromBorder(v); | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:504:37: required from 'bool omnigraph::simplification::relative_coverage::component_remover::InnerComponentSearcher::FindComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 504 | component_.MakeInner(v); | ~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:667:49: required from 'boost::optional > omnigraph::simplification::relative_coverage::component_remover::RelativeCovComponentFinder::operator()(EdgeId) const [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]' 667 | if (component_searcher.FindComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:720:61: required from 'omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover::RelativeCoverageComponentRemover(Graph&, size_t, const omnigraph::FlankingCoverage&, double, size_t, size_t, size_t, double, HandlerF, size_t, std::string) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int; HandlerF = std::function, std::allocator >&)>; std::string = std::__cxx11::basic_string]' 720 | [&](EdgeId e) { return static_cast(finder_(e)); }, chunk_cnt); | ~~~~~~~^~~ /usr/include/c++/14/bits/stl_construct.h:119:7: required from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, function, allocator >&)>&, const long unsigned int&, __cxx11::basic_string, allocator >&}]' 119 | ::new((void*)__p) _Tp(std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/alloc_traits.h:706:19: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/c++/14/bits/shared_ptr_base.h:969:16: required from 'std::__shared_count<_Lp>::__shared_count(_Tp*&, std::_Sp_alloc_shared_tag<_Alloc>, _Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 969 | auto __pi = ::new (__mem) | ^~~~~~~~~~~~~ 970 | _Sp_cp_type(__a._M_a, std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr_base.h:1713:14: required from 'std::__shared_ptr<_Tp, _Lp>::__shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; __gnu_cxx::_Lock_policy _Lp = __gnu_cxx::_S_atomic]' 1713 | : _M_ptr(), _M_refcount(_M_ptr, __tag, std::forward<_Args>(__args)...) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/bits/shared_ptr.h:463:59: required from 'std::shared_ptr<_Tp>::shared_ptr(std::_Sp_alloc_shared_tag<_Tp>, _Args&& ...) [with _Alloc = std::allocator; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, std::function, std::allocator >&)>&, const long unsigned int&, std::__cxx11::basic_string, std::allocator >&}; _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover]' 463 | : __shared_ptr<_Tp>(__tag, std::forward<_Args>(__args)...) | ^ /usr/include/c++/14/bits/shared_ptr.h:1007:14: required from 'std::shared_ptr::value), _Tp>::type> std::make_shared(_Args&& ...) [with _Tp = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover; _Args = {debruijn_graph::DeBruijnGraph&, long unsigned int, const omnigraph::FlankingCoverage&, const double&, long unsigned int, long unsigned int, long unsigned int&, double&, function, allocator >&)>&, const long unsigned int&, __cxx11::basic_string, allocator >&}; typename enable_if<(! is_array<_Tp>::value), _Tp>::type = omnigraph::simplification::relative_coverage::RelativeCoverageComponentRemover]' 1007 | return shared_ptr<_Tp>(_Sp_alloc_shared_tag<_Alloc>{__a}, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1008 | std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:431:49: required from 'omnigraph::AlgoPtr debruijn::simplification::RelativeCoverageComponentRemoverInstance(Graph&, const omnigraph::FlankingCoverage&, const debruijn_graph::config::debruijn_config::simplification::relative_coverage_comp_remover&, const SimplifInfoContainer&, typename omnigraph::ComponentRemover::HandlerF) [with Graph = debruijn_graph::DeBruijnGraph; omnigraph::AlgoPtr = std::shared_ptr >; typename omnigraph::ComponentRemover::HandlerF = std::function, std::allocator >&)>]' 430 | return std::make_shared>(g, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ 432 | info.chunk_cnt(), | ~~~~~~~~~~~~~~~~~ 433 | flanking_cov, | ~~~~~~~~~~~~~ 434 | rcc_config.coverage_gap, | ~~~~~~~~~~~~~~~~~~~~~~~~ 435 | size_t(double(info.read_length()) * rcc_config.length_coeff), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 436 | size_t(double(info.read_length()) * rcc_config.tip_allowing_length_coeff), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 | connecting_path_length_bound, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 | max_coverage, | ~~~~~~~~~~~~~ 439 | removal_handler, rcc_config.vertex_count_limit, pics_dir); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/simplification_test.cpp:312:83: required from here 312 | auto algo = debruijn::simplification::RelativeCoverageComponentRemoverInstance(graph, flanking_cov, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 313 | standard_rcc_config(), | ~~~~~~~~~~~~~~~~~~~~~~ 314 | standard_simplif_relevant_info()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/relative_coverage_remover.hpp:53:16: warning: unused variable 'cnt' [-Wunused-variable] 53 | size_t cnt = border_.erase(v); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:18: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp: In instantiation of 'omnigraph::ParallelBulgeRemover::SmartEdgeSet omnigraph::ParallelBulgeRemover::RetainIndependentBulges(std::vector&) const [with Graph = debruijn_graph::DeBruijnGraph; SmartEdgeSet = omnigraph::SmartSetIterator >]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:720:42: required from 'size_t omnigraph::ParallelBulgeRemover::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 720 | auto interacting_edges = RetainIndependentBulges(bulges); | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:677:12: required from here 677 | size_t Run(bool force_primary_launch, double /*iter_run_progress*/) override { | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/bulge_remover.hpp:581:16: warning: unused variable 'total_cnt' [-Wunused-variable] 581 | size_t total_cnt = bulges.size(); | ^~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap >]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:377:30: required from 'size_t omnigraph::PersistentProcessingAlgorithm::Run(bool, double) [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = omnigraph::CoverageComparator; size_t = long unsigned int]' 377 | for (; !it_.IsEnd(); ++it_) { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/graph_support/parallel_processing.hpp:353:12: required from here 353 | size_t Run(bool force_primary_launch = false, | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_tip_clipper.hpp:13, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:17: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/dominated_set_finder.hpp: In instantiation of 'Range omnigraph::DominatedSetFinder::NeighbourDistanceRange(VertexId, bool) const [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/dominated_set_finder.hpp:100:23: required from 'bool omnigraph::DominatedSetFinder::FillDominated() [with Graph = debruijn_graph::DeBruijnGraph]' 100 | Range r = NeighbourDistanceRange(v); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:990:43: required from 'omnigraph::complex_br::LocalizedComponentFinder::LocalizedComponentFinder(const Graph&, size_t, size_t, VertexId) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int; VertexId = omnigraph::impl::VertexId]' 990 | dominated_set_finder.FillDominated(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1059:41: required from 'bool omnigraph::complex_br::CandidateFinder::Check(VertexId) const [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 1059 | LocalizedComponentFinder comp_finder(g, max_length_, | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1057:10: required from here 1057 | bool Check(VertexId v) const override { | ^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/dominated_set_finder.hpp:43:51: warning: unused parameter 'dominated_only' [-Wunused-parameter] 43 | Range NeighbourDistanceRange(VertexId v, bool dominated_only = true) const { | ~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages/simplification_pipeline/graph_simplification.hpp:19: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'bool omnigraph::complex_br::ComponentProjector::SplitComponent() [with Graph = debruijn_graph::DeBruijnGraph]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:813:14: required from 'bool omnigraph::complex_br::ComponentProjector::ProjectComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 813 | if (!SplitComponent()) { | ^~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1121:44: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::ProcessComponent(omnigraph::complex_br::LocalizedComponent&, size_t) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 1121 | if (!projector.ProjectComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1149:17: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::InnerProcess(VertexId, std::vector&) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId]' 1149 | if (ProcessComponent(component, candidate_cnt)) { | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1195:13: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::Process(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 1195 | if (InnerProcess(v, vertices_to_post_process)) { | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1189:10: required from here 1189 | bool Process(VertexId v) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:777:26: warning: variable 'inner_v' set but not used [-Wunused-but-set-variable] 777 | VertexId inner_v = g_.EdgeEnd(split_res.first); | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'omnigraph::complex_br::ComponentProjector::EdgeId omnigraph::complex_br::ComponentProjector::CorrespondingTreeEdge(EdgeId) const [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:824:29: required from 'bool omnigraph::complex_br::ComponentProjector::ProjectComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 824 | EdgeId target = CorrespondingTreeEdge(*it); | ^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1121:44: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::ProcessComponent(omnigraph::complex_br::LocalizedComponent&, size_t) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 1121 | if (!projector.ProjectComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1149:17: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::InnerProcess(VertexId, std::vector&) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId]' 1149 | if (ProcessComponent(component, candidate_cnt)) { | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1195:13: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::Process(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 1195 | if (InnerProcess(v, vertices_to_post_process)) { | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1189:10: required from here 1189 | bool Process(VertexId v) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:793:16: warning: unused variable 'end_height' [-Wunused-variable] 793 | size_t end_height = component_.avg_distance(g_.EdgeEnd(e)); | ^~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = path_extend::PathListener*; unsigned int PreAllocated = 2]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp: In instantiation of 'void adt::erasable_priority_queue_key_dirty_heap::pop() [with T = omnigraph::impl::EdgeId; Priority = adt::identity]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:506:23: required from 'void adt::DynamicQueueIteratorBase::operator++() [with T = omnigraph::impl::EdgeId; Queue = adt::erasable_priority_queue_key_dirty_heap]' 506 | queue_.pop(); | ~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_iterators.hpp:251:9: required from 'void omnigraph::SmartIterator::operator++() [with Graph = debruijn_graph::DeBruijnGraph; ElementId = omnigraph::impl::EdgeId; Priority = adt::identity]' 251 | ++inner_it_; | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:822:43: required from 'bool omnigraph::complex_br::ComponentProjector::ProjectComponent() [with Graph = debruijn_graph::DeBruijnGraph]' 822 | gc.e_end()); !it.IsEnd(); ++it) { | ^~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1121:44: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::ProcessComponent(omnigraph::complex_br::LocalizedComponent&, size_t) [with Graph = debruijn_graph::DeBruijnGraph; size_t = long unsigned int]' 1121 | if (!projector.ProjectComponent()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1149:17: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::InnerProcess(VertexId, std::vector&) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId; typename Graph::VertexId = omnigraph::impl::VertexId]' 1149 | if (ProcessComponent(component, candidate_cnt)) { | ^~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1195:13: required from 'bool omnigraph::complex_br::ComplexBulgeRemover::Process(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]' 1195 | if (InnerProcess(v, vertices_to_post_process)) { | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:1189:10: required from here 1189 | bool Process(VertexId v) override { | ^~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/queue_iterator.hpp:140:14: warning: unused variable 'res' [-Wunused-variable] 140 | bool res = set_.erase(queue_.top()); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::SkeletonTree::HandleDelete(VertexId) [with Graph = debruijn_graph::DeBruijnGraph; VertexId = omnigraph::impl::VertexId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:309:10: required from here 309 | void HandleDelete(VertexId v) override { | ^~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:309:32: warning: unused parameter 'v' [-Wunused-parameter] 309 | void HandleDelete(VertexId v) override { | ~~~~~~~~~^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::SkeletonTree::HandleMerge(const std::vector&, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; typename Graph::EdgeId = omnigraph::impl::EdgeId; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:320:10: required from here 320 | void HandleMerge(const std::vector &old_edges, EdgeId /*new_edge*/) override { | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:322:21: warning: variable 'e' set but not used [-Wunused-but-set-variable] 322 | for (EdgeId e : old_edges) { | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::ComponentColoring::HandleGlue(EdgeId, EdgeId, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:476:18: required from here 476 | virtual void HandleGlue(EdgeId /*new_edge*/, EdgeId edge1, EdgeId edge2) { | ^~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:476:71: warning: unused parameter 'edge2' [-Wunused-parameter] 476 | virtual void HandleGlue(EdgeId /*new_edge*/, EdgeId edge1, EdgeId edge2) { | ~~~~~~~^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp: In instantiation of 'void omnigraph::complex_br::LocalizedComponent::HandleSplit(EdgeId, EdgeId, EdgeId) [with Graph = debruijn_graph::DeBruijnGraph; EdgeId = omnigraph::impl::EdgeId]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:241:18: required from here 241 | virtual void HandleSplit(EdgeId old_edge, EdgeId new_edge_1, EdgeId /*new_edge_2*/) { | ^~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/simplification/complex_bulge_remover.hpp:244:18: warning: variable 'end' set but not used [-Wunused-but-set-variable] 244 | VertexId end = g_.EdgeEnd(old_edge); | ^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:15, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:11: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/quality.hpp:18, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/single_read.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test_utils.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/io_test.cpp:7: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::PointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/perf/perfcounter.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils/logger/logger.hpp:10, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/observable_graph.hpp:10: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [408]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 408 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [408]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 408 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [504]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 504 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::de::RawPointT; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree_container.h:21, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/safe_btree_set.h:36, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:21: In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/quality.hpp:18, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io/reads/single_read.hpp:11, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test_utils.hpp:9, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/debruijn/test_utils.cpp:7: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256> >, std::less, std::allocator > >, std::less, std::allocator > > > >, 256> > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp: In member function 'void adt::impl::HybridAllocatedStorage::grow(typename adt::impl::SmallPODVectorData::size_type) [with T = omnigraph::impl::EdgeId; unsigned int PreAllocated = 3]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:577:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 577 | *mutable_child(i) = c; | ~~~~~~~~~~~~~~~~~~^~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ In member function 'void btree::btree_node::set_child(int, btree::btree_node*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]', inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2151:24: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:578:23: warning: array subscript 'btree::btree_node > >, std::less, std::allocator > > > >, 256> >[0]' is partly outside array bounds of 'unsigned char [384]' [-Warray-bounds=] 578 | c->fields_.parent = this; | ~~~~~~~~~~~~~~~~~~^~~~~~ In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = char]', inlined from 'btree::btree::node_type* btree::btree::new_internal_node(node_type*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:1281:47, inlined from 'void btree::btree::rebalance_or_split(iterator*) [with Params = btree::btree_map_params > >, std::less, std::allocator > > > >, 256>]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include/btree/btree.h:2150:33: /usr/include/c++/14/bits/new_allocator.h:151:55: note: object of size 384 allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:316:17: warning: 'void operator delete(void*, std::size_t)' called on a pointer passed to mismatched reallocation function 'void* realloc(void*, size_t)' [-Wmismatched-dealloc] 316 | delete v; | ^~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:327:35: note: call to 'void* realloc(void*, size_t)' 327 | new_data = realloc(data, N * sizeof(T)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ In member function 'T* adt::SmallPODVector::insert(const_iterator, const T&) [with T = omnigraph::impl::EdgeId; Container = adt::impl::HybridAllocatedStorage]', inlined from 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:194:31: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/adt/small_pod_vector.hpp:565:13: warning: array subscript 1 is outside array bounds of 'omnigraph::PairedVertex::EdgeId [1]' {aka 'omnigraph::impl::EdgeId [1]'} [-Warray-bounds=] 565 | ++vptr; | ^~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp: In member function 'void omnigraph::PairedVertex::AddOutgoingEdge(EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster]': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph/core/graph_core.hpp:193:33: note: at offset 8 into object 'e' of size 8 193 | void AddOutgoingEdge(EdgeId e) { | ~~~~~~~^ [100%] Linking CXX executable ../../bin/debruijn_test cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/debruijn && /usr/bin/cmake -E cmake_link_script CMakeFiles/debruijn_test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/debruijn_test.dir/link.d CMakeFiles/debruijn_test.dir/graph_core_test.cpp.o CMakeFiles/debruijn_test.dir/histogram_test.cpp.o CMakeFiles/debruijn_test.dir/paired_info_test.cpp.o CMakeFiles/debruijn_test.dir/overlap_analysis_test.cpp.o CMakeFiles/debruijn_test.dir/simplification_test.cpp.o CMakeFiles/debruijn_test.dir/test_utils.cpp.o CMakeFiles/debruijn_test.dir/construction_test.cpp.o CMakeFiles/debruijn_test.dir/io_test.cpp.o CMakeFiles/debruijn_test.dir/path_extend_test.cpp.o CMakeFiles/debruijn_test.dir/graphio.cpp.o CMakeFiles/debruijn_test.dir/overlap_removal_test.cpp.o CMakeFiles/debruijn_test.dir/graph_alignment_test.cpp.o CMakeFiles/debruijn_test.dir/test.cpp.o "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/debruijn_test ../../common/libcommon_modules.a ../../common/io/libinput.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/teamcity_gtest/libteamcity_gtest.a ../../lib/libgtest.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target debruijn_test make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[3]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/Makefile2 include_test make[3]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -B/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/CMakeFiles 41 make -f CMakeFiles/Makefile2 test/include_test/CMakeFiles/include_test.dir/all make[4]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/coverage_model/CMakeFiles/coverage_model.dir/build.make common/modules/coverage_model/CMakeFiles/coverage_model.dir/depend make -f ext/mimalloc/CMakeFiles/mimalloc-obj.dir/build.make ext/mimalloc/CMakeFiles/mimalloc-obj.dir/depend make -f ext/bamtools/api/CMakeFiles/BamTools.dir/build.make ext/bamtools/api/CMakeFiles/BamTools.dir/depend make -f ext/cppformat/CMakeFiles/format.dir/build.make ext/cppformat/CMakeFiles/format.dir/depend make -f ext/llvm/CMakeFiles/llvm-support.dir/build.make ext/llvm/CMakeFiles/llvm-support.dir/depend make -f ext/gqf/CMakeFiles/gqf.dir/build.make ext/gqf/CMakeFiles/gqf.dir/depend make -f ext/edlib/CMakeFiles/edlib.dir/build.make ext/edlib/CMakeFiles/edlib.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/mimalloc /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/mimalloc/CMakeFiles/mimalloc-obj.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/gqf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/gqf/CMakeFiles/gqf.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/cppformat /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/cppformat/CMakeFiles/format.dir/DependInfo.cmake "--color=" make -f ext/googletest/googletest/CMakeFiles/gtest.dir/build.make ext/googletest/googletest/CMakeFiles/gtest.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/coverage_model /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/coverage_model 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ext/googletest/googletest/CMakeFiles/gtest.dir/build.make ext/googletest/googletest/CMakeFiles/gtest.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/gqf/CMakeFiles/gqf.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/io/binary/CMakeFiles/binary_io.dir/build.make common/io/binary/CMakeFiles/binary_io.dir/build make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/cppformat/CMakeFiles/format.dir/build.make ext/cppformat/CMakeFiles/format.dir/build make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/googletest/googletest/CMakeFiles/gtest.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/llvm/CMakeFiles/llvm-support.dir/build.make ext/llvm/CMakeFiles/llvm-support.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/cppformat/CMakeFiles/format.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/io/binary/CMakeFiles/binary_io.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/paired_info/CMakeFiles/paired_info.dir/build.make common/paired_info/CMakeFiles/paired_info.dir/build [ 2%] Built target mimalloc-obj [ 4%] Built target edlib [ 4%] Built target coverage_model make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/paired_info/CMakeFiles/paired_info.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 7%] Built target gqf make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/bamtools/api/CMakeFiles/BamTools.dir/build.make ext/bamtools/api/CMakeFiles/BamTools.dir/build make -f common/sequence/CMakeFiles/sequence.dir/build.make common/sequence/CMakeFiles/sequence.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/sequence /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/sequence/CMakeFiles/sequence.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/llvm/CMakeFiles/llvm-support.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 7%] Built target gtest make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/bamtools/api/CMakeFiles/BamTools.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build.make ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/depend [ 7%] Built target paired_info [ 9%] Built target format [ 12%] Built target version make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/teamcity_gtest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/DependInfo.cmake "--color=" make -f common/utils/CMakeFiles/utils.dir/build.make common/utils/CMakeFiles/utils.dir/depend [ 12%] Built target binary_io make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/utils/CMakeFiles/utils.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build.make ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 34%] Built target llvm-support make -f common/sequence/CMakeFiles/sequence.dir/build.make common/sequence/CMakeFiles/sequence.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/teamcity_gtest/CMakeFiles/teamcity_gtest.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 53%] Built target BamTools make -f ext/samtools/CMakeFiles/samtools.dir/build.make ext/samtools/CMakeFiles/samtools.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/sequence/CMakeFiles/sequence.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/utils/CMakeFiles/utils.dir/build.make common/utils/CMakeFiles/utils.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/samtools /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/ext/samtools/CMakeFiles/samtools.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/utils/CMakeFiles/utils.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 53%] Built target teamcity_gtest [ 56%] Built target sequence make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f ext/samtools/CMakeFiles/samtools.dir/build.make ext/samtools/CMakeFiles/samtools.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'ext/samtools/CMakeFiles/samtools.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 58%] Built target utils make -f common/assembly_graph/CMakeFiles/assembly_graph.dir/build.make common/assembly_graph/CMakeFiles/assembly_graph.dir/depend [ 65%] Built target samtools make -f common/io/CMakeFiles/input.dir/build.make common/io/CMakeFiles/input.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/assembly_graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/assembly_graph/CMakeFiles/assembly_graph.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/io /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/io/CMakeFiles/input.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/io/CMakeFiles/input.dir/build.make common/io/CMakeFiles/input.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/io/CMakeFiles/input.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/assembly_graph/CMakeFiles/assembly_graph.dir/build.make common/assembly_graph/CMakeFiles/assembly_graph.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/assembly_graph/CMakeFiles/assembly_graph.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 70%] Built target input [ 75%] Built target assembly_graph make -f common/modules/path_extend/CMakeFiles/path_extend.dir/build.make common/modules/path_extend/CMakeFiles/path_extend.dir/depend make -f common/modules/CMakeFiles/modules.dir/build.make common/modules/CMakeFiles/modules.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules/path_extend /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/path_extend/CMakeFiles/path_extend.dir/DependInfo.cmake "--color=" make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/modules /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/modules/CMakeFiles/modules.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/path_extend/CMakeFiles/path_extend.dir/build.make common/modules/path_extend/CMakeFiles/path_extend.dir/build make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/modules/CMakeFiles/modules.dir/build.make common/modules/CMakeFiles/modules.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/modules/CMakeFiles/modules.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/modules/path_extend/CMakeFiles/path_extend.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 85%] Built target path_extend make -f common/pipeline/CMakeFiles/pipeline.dir/build.make common/pipeline/CMakeFiles/pipeline.dir/depend [ 90%] Built target modules make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/pipeline /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/pipeline/CMakeFiles/pipeline.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/pipeline/CMakeFiles/pipeline.dir/build.make common/pipeline/CMakeFiles/pipeline.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/pipeline/CMakeFiles/pipeline.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 92%] Built target pipeline make -f common/stages/CMakeFiles/stages.dir/build.make common/stages/CMakeFiles/stages.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/stages /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/stages/CMakeFiles/stages.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/stages/CMakeFiles/stages.dir/build.make common/stages/CMakeFiles/stages.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/stages/CMakeFiles/stages.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target stages make -f common/CMakeFiles/common_modules.dir/build.make common/CMakeFiles/common_modules.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/common/CMakeFiles/common_modules.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f common/CMakeFiles/common_modules.dir/build.make common/CMakeFiles/common_modules.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[5]: Nothing to be done for 'common/CMakeFiles/common_modules.dir/build'. make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target common_modules make -f test/include_test/CMakeFiles/include_test.dir/build.make test/include_test/CMakeFiles/include_test.dir/depend make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test/CMakeFiles/include_test.dir/DependInfo.cmake "--color=" make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make -f test/include_test/CMakeFiles/include_test.dir/build.make test/include_test/CMakeFiles/include_test.dir/build make[5]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [ 95%] Building CXX object test/include_test/CMakeFiles/include_test.dir/rtseq_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/rtseq_test.cpp.o -MF CMakeFiles/include_test.dir/rtseq_test.cpp.o.d -o CMakeFiles/include_test.dir/rtseq_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp [ 95%] Building CXX object test/include_test/CMakeFiles/include_test.dir/seq_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/seq_test.cpp.o -MF CMakeFiles/include_test.dir/seq_test.cpp.o.d -o CMakeFiles/include_test.dir/seq_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp [100%] Building CXX object test/include_test/CMakeFiles/include_test.dir/test.cpp.o [100%] Building CXX object test/include_test/CMakeFiles/include_test.dir/sequence_test.cpp.o [100%] Building CXX object test/include_test/CMakeFiles/include_test.dir/quality_test.cpp.o [100%] Building CXX object test/include_test/CMakeFiles/include_test.dir/binary_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/test.cpp.o -MF CMakeFiles/include_test.dir/test.cpp.o.d -o CMakeFiles/include_test.dir/test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/sequence_test.cpp.o -MF CMakeFiles/include_test.dir/sequence_test.cpp.o.d -o CMakeFiles/include_test.dir/sequence_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/sequence_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/quality_test.cpp.o -MF CMakeFiles/include_test.dir/quality_test.cpp.o.d -o CMakeFiles/include_test.dir/quality_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/quality_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/binary_test.cpp.o -MF CMakeFiles/include_test.dir/binary_test.cpp.o.d -o CMakeFiles/include_test.dir/binary_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/binary_test.cpp [100%] Building CXX object test/include_test/CMakeFiles/include_test.dir/nucl_test.cpp.o [100%] Building CXX object test/include_test/CMakeFiles/include_test.dir/cyclic_hash_test.cpp.o cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/nucl_test.cpp.o -MF CMakeFiles/include_test.dir/nucl_test.cpp.o.d -o CMakeFiles/include_test.dir/nucl_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/nucl_test.cpp cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/c++ -DNDEBUG -DUSE_GLIBCXX_PARALLEL=1 -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/include -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common -I/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/mimalloc/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/../ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include -isystem /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -std=gnu++14 -Wno-deprecated -O2 -Wall -Wextra -Wconversion -Wno-sign-conversion -Wno-long-long -Wwrite-strings -MD -MT test/include_test/CMakeFiles/include_test.dir/cyclic_hash_test.cpp.o -MF CMakeFiles/include_test.dir/cyclic_hash_test.cpp.o.d -o CMakeFiles/include_test.dir/cyclic_hash_test.cpp.o -c /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/cyclic_hash_test.cpp In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:7: In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 7; T = long unsigned int]', inlined from 'char Seq::first() const [with long unsigned int size_ = 7; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:461:26, inlined from 'virtual void Seq_TestFirstLast_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:156:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:68: warning: 's1$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_TestFirstLast_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:155:12: note: 's1$_M_elems$' was declared here 155 | Seq<7> s1("ACGTACT"); | ^~ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 7; T = long unsigned int]', inlined from 'char Seq::first() const [with long unsigned int size_ = 7; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:461:26, inlined from 'virtual void Seq_TestFirstLast_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:159:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:68: warning: 's2$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_TestFirstLast_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:158:12: note: 's2$_M_elems$' was declared here 158 | Seq<7> s2("TTTTTTT"); | ^~ In member function 'Seq Seq::operator<<(char) const [with long unsigned int size_ = 10; T = long unsigned int]', inlined from 'virtual void Seq_ShiftLeft_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:27:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:265:54: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 265 | data[DataSize - 1] = (data[DataSize - 1] >> 2) | ((T) c << lastnuclshift_); | ~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_ShiftLeft_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:26:13: note: 's$_M_elems$' was declared here 26 | Seq<10> s("ACGTACGTAC"); | ^ In member function 'Seq Seq::operator>>(char) const [with long unsigned int size_ = 10; T = long unsigned int]', inlined from 'virtual void Seq_ShiftRight_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:40:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:341:42: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 341 | res.data_[i] = (res.data_[i] << 2) | rm; | ~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_ShiftRight_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:39:13: note: 's$_M_elems$' was declared here 39 | Seq<10> s("ACGTACGTAC"); | ^ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 10; T = long unsigned int]', inlined from 'std::string Seq::str() const [with long unsigned int size_ = 10; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:384:37, inlined from 'virtual void Seq_Str_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:54:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_Str_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:53:13: note: 's$_M_elems$' was declared here 53 | Seq<10> s("ACGTACGTAC"); | ^ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 10; T = long unsigned int]', inlined from 'Seq::Seq(const S&, size_t, size_t, bool) [with S = Seq<10>; long unsigned int size_ = 9; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:199:35, inlined from 'virtual void Seq_HeadAndTail_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:61:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_HeadAndTail_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:60:13: note: 's$_M_elems$' was declared here 60 | Seq<10> s("ACGTACGTAC"); | ^ In member function 'void Seq::set(size_t, char) [with long unsigned int size_ = 10; T = long unsigned int]', inlined from 'Seq Seq::operator!() const [with long unsigned int size_ = 10; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:240:20, inlined from 'virtual void Seq_ReverseComplement_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:137:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:357:40: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 357 | (data_[i >> TNuclBits] & ~((T) 3 << ((i & (TNucl - 1)) << 1))) | ((T) c << ((i & (TNucl - 1)) << 1)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_ReverseComplement_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:136:13: note: 's$_M_elems$' was declared here 136 | Seq<10> s("ACGTACGTAC"); | ^ In member function 'void Seq::set(size_t, char) [with long unsigned int size_ = 9; T = long unsigned int]', inlined from 'Seq Seq::operator!() const [with long unsigned int size_ = 9; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:240:20, inlined from 'virtual void Seq_ReverseComplement_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:141:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:357:40: warning: 's3$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 357 | (data_[i >> TNuclBits] & ~((T) 3 << ((i & (TNucl - 1)) << 1))) | ((T) c << ((i & (TNucl - 1)) << 1)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_ReverseComplement_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:140:12: note: 's3$_M_elems$' was declared here 140 | Seq<9> s3("ACGTACGTA"); | ^~ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 10; T = long unsigned int]', inlined from 'Seq::Seq(const S&, size_t, size_t, bool) [with S = Seq<10>; long unsigned int size_ = 5; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:199:35, inlined from 'virtual void Seq_FromBiggerSeq_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:67:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_FromBiggerSeq_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:66:13: note: 's$_M_elems$' was declared here 66 | Seq<10> s("ACGTACGTAC"); | ^ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 5; T = long unsigned int]', inlined from 'Seq::Seq(const S&, size_t, size_t, bool) [with S = Seq<5>; long unsigned int size_ = 4; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:199:35, inlined from 'Seq Seq::end() const [with long unsigned int size2_ = 4; T2 = long unsigned int; long unsigned int size_ = 5; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:444:16, inlined from 'virtual void Seq_End_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:115:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's1$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_End_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:114:12: note: 's1$_M_elems$' was declared here 114 | Seq<5> s1("ACGTA"); | ^~ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 5; T = long unsigned int]', inlined from 'Seq::Seq(const S&, size_t, size_t, bool) [with S = Seq<5>; long unsigned int size_ = 4; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:199:35, inlined from 'Seq Seq::start() const [with long unsigned int size2_ = 4; T2 = long unsigned int; long unsigned int size_ = 5; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:438:16, inlined from 'virtual void Seq_Start_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:120:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's1$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_Start_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:119:12: note: 's1$_M_elems$' was declared here 119 | Seq<5> s1("ACGTA"); | ^~ In member function 'Seq<(size_ + 1), T> Seq::pushBack(char) const [with long unsigned int size_ = 4; T = long unsigned int]', inlined from 'virtual void Seq_PushBack_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:79:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:287:59: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 287 | s.data_[s.DataSize - 1] = s.data_[s.DataSize - 1] | ((T) c << ((size_ & (TNucl - 1)) << 1)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_PushBack_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:78:16: note: 's$_M_elems$' was declared here 78 | Seq<4> s("ACGT"); | ^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/ext/src/googletest/googletest/include/gtest/gtest.h:387, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:12: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:83:38: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 83 | EXPECT_EQ("ACGTC", s.pushBack('C').str()); | ~~~~~~~~~~^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:82:31: note: 's$_M_elems$' was declared here 82 | Seq<4, unsigned char> s("ACGT"); | ^ In member function 'Seq<(size_ + 1), T> Seq::pushBack(char) const [with long unsigned int size_ = 3; T = long unsigned int]', inlined from 'virtual void Seq_PushBack_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:87:9: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:287:59: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 287 | s.data_[s.DataSize - 1] = s.data_[s.DataSize - 1] | ((T) c << ((size_ & (TNucl - 1)) << 1)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_PushBack_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:86:16: note: 's$_M_elems$' was declared here 86 | Seq<3> s("ACG"); | ^ In member function 'Seq Seq::operator<<(char) const [with long unsigned int size_ = 16; T = long unsigned int]', inlined from 'virtual void Seq_Test16_2_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:151:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:265:54: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 265 | data[DataSize - 1] = (data[DataSize - 1] >> 2) | ((T) c << lastnuclshift_); | ~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_Test16_2_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:150:13: note: 's$_M_elems$' was declared here 150 | Seq<16> s("TTTTTTTTTTTTTTTT"); | ^ In member function 'Seq Seq::operator<<(char) const [with long unsigned int size_ = 16; T = long unsigned int]', inlined from 'virtual void Seq_Test16_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:146:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:265:54: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 265 | data[DataSize - 1] = (data[DataSize - 1] >> 2) | ((T) c << lastnuclshift_); | ~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp: In member function 'virtual void Seq_Test16_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/seq_test.cpp:145:13: note: 's$_M_elems$' was declared here 145 | Seq<16> s("AAAAAAAAAAAAAAAA"); | ^ In file included from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/rtseq.hpp:25, from /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:7: In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 5; T = long unsigned int]', inlined from 'std::string Seq::str() const [with long unsigned int size_ = 5; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:384:37, inlined from 'virtual void RtSeq_FromSeq_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:336:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp: In member function 'virtual void RtSeq_FromSeq_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:328:12: note: 's$_M_elems$' was declared here 328 | Seq<5> s("CGTAC"); | ^ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 10; T = long unsigned int]', inlined from 'std::string Seq::str() const [with long unsigned int size_ = 10; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:384:37, inlined from 'virtual void RtSeq_FromSeq_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:337:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's1$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp: In member function 'virtual void RtSeq_FromSeq_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:329:13: note: 's1$_M_elems$' was declared here 329 | Seq<10> s1("ACGTACGTAC"); | ^~ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 16; T = long unsigned int]', inlined from 'std::string Seq::str() const [with long unsigned int size_ = 16; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:384:37, inlined from 'virtual void RtSeq_FromSeq_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:338:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's2$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp: In member function 'virtual void RtSeq_FromSeq_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:330:13: note: 's2$_M_elems$' was declared here 330 | Seq<16> s2("CCCCGTACGTACGTAC"); | ^~ In member function 'char Seq::operator[](size_t) const [with long unsigned int size_ = 32; T = long unsigned int]', inlined from 'std::string Seq::str() const [with long unsigned int size_ = 32; T = long unsigned int]' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:384:37, inlined from 'virtual void RtSeq_FromSeq_Test::TestBody()' at /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:339:5: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/common/sequence/seq.hpp:227:39: warning: 's3$_M_elems$' may be used uninitialized [-Wmaybe-uninitialized] 227 | return (data_[i >> TNuclBits] >> ((i & (TNucl - 1)) << 1)) & 3; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp: In member function 'virtual void RtSeq_FromSeq_Test::TestBody()': /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/test/include_test/rtseq_test.cpp:331:13: note: 's3$_M_elems$' was declared here 331 | Seq<32> s3("ACGTACGTACACGTACGTACACGTACGTACAC"); | ^~ [100%] Linking CXX executable ../../bin/include_test cd /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test && /usr/bin/cmake -E cmake_link_script CMakeFiles/include_test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/include_test.dir/link.d CMakeFiles/include_test.dir/seq_test.cpp.o CMakeFiles/include_test.dir/sequence_test.cpp.o CMakeFiles/include_test.dir/rtseq_test.cpp.o CMakeFiles/include_test.dir/quality_test.cpp.o CMakeFiles/include_test.dir/nucl_test.cpp.o CMakeFiles/include_test.dir/cyclic_hash_test.cpp.o CMakeFiles/include_test.dir/binary_test.cpp.o CMakeFiles/include_test.dir/test.cpp.o "../../ext/mimalloc/CMakeFiles/mimalloc-obj.dir/src/static.c.o" -o ../../bin/include_test ../../common/libcommon_modules.a ../../common/io/libinput.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/teamcity_gtest/libteamcity_gtest.a ../../lib/libgtest.a ../../common/paired_info/libpaired_info.a ../../common/stages/libstages.a ../../common/pipeline/libpipeline.a ../../common/io/libinput.a ../../ext/samtools/libsamtools.a ../../ext/bamtools/api/libBamTools.a ../../common/modules/path_extend/libpath_extend.a -lssw ../../common/io/binary/libbinary_io.a ../../common/modules/coverage_model/libcoverage_model.a -lnlopt ../../ext/gqf/libgqf.a ../../common/modules/libmodules.a ../../common/assembly_graph/libassembly_graph.a ../../common/utils/libutils.a ../../common/utils/libversion.a ../../ext/cppformat/libformat.a ../../ext/llvm/libllvm-support.a /usr/lib/x86_64-linux-gnu/libdl.a /usr/lib/llvm-19/lib/libLLVMSupport.a -lrt -ldl -lm /usr/lib/x86_64-linux-gnu/libz3.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libzstd.so /usr/lib/llvm-19/lib/libLLVMDemangle.a ../../common/sequence/libsequence.a ../../ext/edlib/libedlib.a -lbwa /usr/lib/x86_64-linux-gnu/libz.so make[5]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' [100%] Built target include_test make[4]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[3]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[2]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_auto_test -O--sourcedirectory=assembler/src -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j40 UpdateCTestConfiguration from :/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end Connected to MAKE jobserver test 1 Start 1: include_test 1: Test command: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/bin/include_test 1: Working Directory: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/test/include_test 1: Test timeout computed to be: 10000000 test 2 Start 2: debruijn_test 2: Test command: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu/bin/debruijn_test 2: Working Directory: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src/.. 2: Test timeout computed to be: 10000000 1: Running main() from gtest_main.cpp 1: [==========] Running 58 tests from 7 test suites. 1: [----------] Global test environment set-up. 1: [----------] 20 tests from Seq 1: [ RUN ] Seq.Selector 1: [ OK ] Seq.Selector (0 ms) 1: [ RUN ] Seq.ShiftLeft 1: [ OK ] Seq.ShiftLeft (0 ms) 1: [ RUN ] Seq.ShiftRight 1: [ OK ] Seq.ShiftRight (0 ms) 1: [ RUN ] Seq.Str 1: [ OK ] Seq.Str (0 ms) 1: [ RUN ] Seq.HeadAndTail 1: [ OK ] Seq.HeadAndTail (0 ms) 1: [ RUN ] Seq.FromBiggerSeq 1: [ OK ] Seq.FromBiggerSeq (0 ms) 1: [ RUN ] Seq.FromType 1: [ OK ] Seq.FromType (0 ms) 1: [ RUN ] Seq.PushBack 1: [ OK ] Seq.PushBack (0 ms) 1: [ RUN ] Seq.Null 1: [ OK ] Seq.Null (0 ms) 1: [ RUN ] Seq.EndNull 1: [ OK ] Seq.EndNull (0 ms) 1: [ RUN ] Seq.StartNull 1: [ OK ] Seq.StartNull (0 ms) 1: [ RUN ] Seq.AddSymbolForNullValue 1: [ OK ] Seq.AddSymbolForNullValue (0 ms) 1: [ RUN ] Seq.End 1: [ OK ] Seq.End (0 ms) 1: [ RUN ] Seq.Start 1: [ OK ] Seq.Start (0 ms) 1: [ RUN ] Seq.Complex 1: [ OK ] Seq.Complex (0 ms) 1: [ RUN ] Seq.FromCharArray 1: [ OK ] Seq.FromCharArray (0 ms) 1: [ RUN ] Seq.ReverseComplement 1: [ OK ] Seq.ReverseComplement (0 ms) 1: [ RUN ] Seq.Test16 1: [ OK ] Seq.Test16 (0 ms) 1: [ RUN ] Seq.Test16_2 1: [ OK ] Seq.Test16_2 (0 ms) 1: [ RUN ] Seq.TestFirstLast 1: [ OK ] Seq.TestFirstLast (0 ms) 1: [----------] 20 tests from Seq (1 ms total) 1: 1: [----------] 6 tests from Sequence 1: [ RUN ] Sequence.Selector 1: [ OK ] Sequence.Selector (0 ms) 1: [ RUN ] Sequence.ZeroLength 1: [ OK ] Sequence.ZeroLength (0 ms) 1: [ RUN ] Sequence.NullValue 1: [ OK ] Sequence.NullValue (0 ms) 1: [ RUN ] Sequence.Sum 1: [ OK ] Sequence.Sum (0 ms) 1: [ RUN ] Sequence.Str 1: [ OK ] Sequence.Str (0 ms) 1: [ RUN ] Sequence.ReverseComplement 1: [ OK ] Sequence.ReverseComplement (0 ms) 1: [----------] 6 tests from Sequence (0 ms total) 1: 1: [----------] 23 tests from RtSeq 1: [ RUN ] RtSeq.Selector 1: [ OK ] RtSeq.Selector (0 ms) 1: [ RUN ] RtSeq.ShiftLeft 1: [ OK ] RtSeq.ShiftLeft (0 ms) 1: [ RUN ] RtSeq.ShiftLeftThis 1: [ OK ] RtSeq.ShiftLeftThis (0 ms) 1: [ RUN ] RtSeq.ShiftRight 1: [ OK ] RtSeq.ShiftRight (0 ms) 1: [ RUN ] RtSeq.ShiftRightThis 1: [ OK ] RtSeq.ShiftRightThis (0 ms) 1: [ RUN ] RtSeq.Str 1: [ OK ] RtSeq.Str (0 ms) 1: [ RUN ] RtSeq.HeadAndTail 1: [ OK ] RtSeq.HeadAndTail (0 ms) 1: [ RUN ] RtSeq.FromBiggerRtSeq 1: [ OK ] RtSeq.FromBiggerRtSeq (0 ms) 1: [ RUN ] RtSeq.FromSeq 1: [ OK ] RtSeq.FromSeq (0 ms) 1: [ RUN ] RtSeq.ToSeq 2: Running main() from gtest_main.cpp 2: [==========] Running 98 tests from 10 test suites. 2: [----------] Global test environment set-up. 2: [----------] 6 tests from GraphCore 2: [ RUN ] GraphCore.Empty 1: [ OK ] RtSeq.ToSeq (0 ms) 1: [ RUN ] RtSeq.FromType 1: [ OK ] RtSeq.FromType (0 ms) 1: [ RUN ] RtSeq.PushBack 1: [ OK ] RtSeq.PushBack (0 ms) 1: [ RUN ] RtSeq.PushBackThis 1: [ OK ] RtSeq.PushBackThis (0 ms) 1: [ RUN ] RtSeq.PushFront 1: [ OK ] RtSeq.PushFront (0 ms) 1: [ RUN ] RtSeq.PushFrontThis 1: [ OK ] RtSeq.PushFrontThis (0 ms) 1: [ RUN ] RtSeq.Null 1: [ OK ] RtSeq.Null (0 ms) 1: [ RUN ] RtSeq.AddSymbolForNullValue 1: [ OK ] RtSeq.AddSymbolForNullValue (0 ms) 1: [ RUN ] RtSeq.Complex 1: [ OK ] RtSeq.Complex (0 ms) 1: [ RUN ] RtSeq.FromCharArray 1: [ OK ] RtSeq.FromCharArray (0 ms) 1: [ RUN ] RtSeq.ReverseComplement 1: [ OK ] RtSeq.ReverseComplement (0 ms) 1: [ RUN ] RtSeq.16 1: [ OK ] RtSeq.16 (0 ms) 1: [ RUN ] RtSeq.16_2 1: [ OK ] RtSeq.16_2 (0 ms) 1: [ RUN ] RtSeq.FirstLast 1: [ OK ] RtSeq.FirstLast (0 ms) 1: [----------] 23 tests from RtSeq (0 ms total) 1: 1: [----------] 1 test from Quality 1: [ RUN ] Quality.Test 1: [ OK ] Quality.Test (0 ms) 1: [----------] 1 test from Quality (0 ms total) 1: 1: [----------] 1 test from Nucl 1: [ RUN ] Nucl.Test 1: [ OK ] Nucl.Test (0 ms) 1: [----------] 1 test from Nucl (0 ms total) 1: 1: [----------] 4 tests from CyclicHash 1: [ RUN ] CyclicHash.TestBasic 1: [ OK ] CyclicHash.TestBasic (0 ms) 1: [ RUN ] CyclicHash.TestBasicRtSeq 1: [ OK ] CyclicHash.TestBasicRtSeq (0 ms) 1: [ RUN ] CyclicHash.TestRC 1: [ OK ] CyclicHash.TestRC (0 ms) 1: [ RUN ] CyclicHash.TestRoll 1: [ OK ] CyclicHash.TestRoll (0 ms) 1: [----------] 4 tests from CyclicHash (0 ms total) 1: 1: [----------] 3 tests from Binary 1: [ RUN ] Binary.Simple 1: [ OK ] Binary.Simple (0 ms) 1: [ RUN ] Binary.Containers 1: [ OK ] Binary.Containers (0 ms) 1: [ RUN ] Binary.Variadic 1: [ OK ] Binary.Variadic (0 ms) 1: [----------] 3 tests from Binary (0 ms total) 1: 1: [----------] Global test environment tear-down 1: [==========] 58 tests from 7 test suites ran. (1 ms total) 1: [ PASSED ] 58 tests. 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] GraphCore.Empty (0 ms) 2: [ RUN ] GraphCore.OneVertex 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] GraphCore.OneVertex (0 ms) 2: [ RUN ] GraphCore.OneEdge 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] GraphCore.OneEdge (0 ms) 2: [ RUN ] GraphCore.VertexMethods 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] GraphCore.VertexMethods (0 ms) 2: [ RUN ] GraphCore.SmartIterator 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] GraphCore.SmartIterator (0 ms) 2: [ RUN ] GraphCore.SelfRCEdgeMerge 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 1/2 Test #1: include_test ..................... Passed 0.01 sec 2: 0:00:00.000 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] GraphCore.SelfRCEdgeMerge (0 ms) 2: [----------] 6 tests from GraphCore (0 ms total) 2: 2: [----------] 1 test from Histogram 2: [ RUN ] Histogram.StrongWeakPtrBasic 2: [ OK ] Histogram.StrongWeakPtrBasic (0 ms) 2: [----------] 1 test from Histogram (0 ms total) 2: 2: [----------] 13 tests from PairedInfo 2: [ RUN ] PairedInfo.Construct 2: [ OK ] PairedInfo.Construct (0 ms) 2: [ RUN ] PairedInfo.Access 2: [ OK ] PairedInfo.Access (0 ms) 2: [ RUN ] PairedInfo.HalfAccess 2: [ OK ] PairedInfo.HalfAccess (0 ms) 2: [ RUN ] PairedInfo.Remove 2: [ OK ] PairedInfo.Remove (1 ms) 2: [ RUN ] PairedInfo.UnexistingEdges 2: [ OK ] PairedInfo.UnexistingEdges (0 ms) 2: [ RUN ] PairedInfo.Prune 2: [ OK ] PairedInfo.Prune (0 ms) 2: [ RUN ] PairedInfo.Neighbours 2: [ OK ] PairedInfo.Neighbours (0 ms) 2: [ RUN ] PairedInfo.DoubledInfo 2: [ OK ] PairedInfo.DoubledInfo (0 ms) 2: [ RUN ] PairedInfo.HalfNeighbours 2: [ OK ] PairedInfo.HalfNeighbours (0 ms) 2: [ RUN ] PairedInfo.MoreNeighbours 2: [ OK ] PairedInfo.MoreNeighbours (0 ms) 2: [ RUN ] PairedInfo.Merge 2: [ OK ] PairedInfo.Merge (0 ms) 2: [ RUN ] PairedInfo.PairTraverse 2: [ OK ] PairedInfo.PairTraverse (0 ms) 2: [ RUN ] PairedInfo.RandomSymmetry 2: 0:00:00.001 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.001 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] PairedInfo.RandomSymmetry (37 ms) 2: [----------] 13 tests from PairedInfo (38 ms total) 2: 2: [----------] 13 tests from OverlapAnalysis 2: [ RUN ] OverlapAnalysis.Trivial 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.Trivial (0 ms) 2: [ RUN ] OverlapAnalysis.Mismatch 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.Mismatch (0 ms) 2: [ RUN ] OverlapAnalysis.Mismatch2 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.Mismatch2 (0 ms) 2: [ RUN ] OverlapAnalysis.Deletion 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.Deletion (0 ms) 2: [ RUN ] OverlapAnalysis.Insertion 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.Insertion (0 ms) 2: [ RUN ] OverlapAnalysis.QueryLonger 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.QueryLonger (0 ms) 2: [ RUN ] OverlapAnalysis.RefLonger 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.RefLonger (0 ms) 2: [ RUN ] OverlapAnalysis.TrivialBoundedFlank 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.TrivialBoundedFlank (0 ms) 2: [ RUN ] OverlapAnalysis.PartialPerfectAlignment 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.PartialPerfectAlignment (0 ms) 2: [ RUN ] OverlapAnalysis.Unalignable 2: When maskLen < 15, the function ssw_align doesn't return 2nd best alignment information. 2: [ OK ] OverlapAnalysis.Unalignable (0 ms) 2: [ RUN ] OverlapAnalysis.Large 2: [ OK ] OverlapAnalysis.Large (0 ms) 2: [ RUN ] OverlapAnalysis.SimpleGap 2: [ OK ] OverlapAnalysis.SimpleGap (1 ms) 2: [ RUN ] OverlapAnalysis.UndefinedBehavior 2: [ OK ] OverlapAnalysis.UndefinedBehavior (0 ms) 2: [----------] 13 tests from OverlapAnalysis (1 ms total) 2: 2: [----------] 17 tests from Simplification 2: [ RUN ] Simplification.SimpleTipClipperTest 2: 0:00:00.039 1M / 8M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.039 1M / 8M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.040 1M / 9M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/simpliest_tip/simpliest_tip.grp 2: 0:00:00.040 1M / 9M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/simpliest_tip/simpliest_tip started 2: 0:00:00.042 1M / 12M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/simpliest_tip/simpliest_tip 2: [ OK ] Simplification.SimpleTipClipperTest (4 ms) 2: [ RUN ] Simplification.SimpleBulgeRemovalTest 2: 0:00:00.043 1M / 12M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.043 1M / 12M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.043 1M / 12M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/simpliest_bulge/simpliest_bulge.grp 2: 0:00:00.043 1M / 12M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/simpliest_bulge/simpliest_bulge started 2: 0:00:00.047 1M / 12M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/simpliest_bulge/simpliest_bulge 2: 0:00:00.048 1M / 12M INFO General (graph_simplification.hpp : 645) Creating br instance 2: [ OK ] Simplification.SimpleBulgeRemovalTest (5 ms) 2: [ RUN ] Simplification.TipobulgeTest 2: 0:00:00.048 1M / 12M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.048 1M / 12M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.048 1M / 12M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/tipobulge/tipobulge.grp 2: 0:00:00.048 1M / 12M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/tipobulge/tipobulge started 2: 0:00:00.049 1M / 12M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/tipobulge/tipobulge 2: 0:00:00.050 1M / 12M INFO General (graph_simplification.hpp : 645) Creating br instance 2: [ OK ] Simplification.TipobulgeTest (2 ms) 2: [ RUN ] Simplification.SimpleECTest 2: 0:00:00.050 1M / 12M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.050 1M / 12M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.050 1M / 12M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path.grp 2: 0:00:00.050 1M / 12M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path started 2: 0:00:00.062 623M / 623M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path 2: [ OK ] Simplification.SimpleECTest (27 ms) 2: [ RUN ] Simplification.SimpleIterECTest 2: 0:00:00.077 1M / 18M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.077 1M / 18M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.077 1M / 18M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path.grp 2: 0:00:00.077 1M / 18M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path started 2: 0:00:00.085 623M / 623M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path 2: [ OK ] Simplification.SimpleIterECTest (25 ms) 2: [ RUN ] Simplification.IterECTest 2: 0:00:00.102 1M / 18M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.102 1M / 18M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.102 1M / 18M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path.grp 2: 0:00:00.102 1M / 18M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path started 2: 0:00:00.109 623M / 623M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path 2: [ OK ] Simplification.IterECTest (23 ms) 2: [ RUN ] Simplification.IterUniquePath 2: 0:00:00.125 1M / 18M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.125 1M / 18M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.125 1M / 18M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path.grp 2: 0:00:00.125 1M / 18M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path started 2: 0:00:00.133 623M / 623M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/topology_ec/iter_unique_path 2: 0:00:00.133 623M / 623M INFO General (single_cell_simplification: 49) Removing connections based on topology 2: 0:00:00.141 623M / 623M INFO General (single_cell_simplification: 49) Removing connections based on topology 2: [ OK ] Simplification.IterUniquePath (32 ms) 2: [ RUN ] Simplification.MFUniquePath 2: 0:00:00.157 1M / 18M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.157 1M / 18M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.157 1M / 18M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/unique_path.grp 2: 0:00:00.157 1M / 18M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/topology_ec/unique_path started 2: 0:00:00.165 607M / 607M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/topology_ec/unique_path 2: 0:00:00.166 607M / 607M INFO General (single_cell_simplification: 126) Removing connections based on max flow strategy 2: [ OK ] Simplification.MFUniquePath (41 ms) 2: [ RUN ] Simplification.ComplexBulgeRemoverOnSimpleBulge 2: 0:00:00.198 1M / 18M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.198 1M / 18M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.198 1M / 18M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/simpliest_bulge/simpliest_bulge.grp 2: 0:00:00.198 1M / 18M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/simpliest_bulge/simpliest_bulge started 2: 0:00:00.199 1M / 18M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/simpliest_bulge/simpliest_bulge 2: 0:00:00.199 1M / 18M INFO General (simplification_test.cpp : 276) Done 2: [ OK ] Simplification.ComplexBulgeRemoverOnSimpleBulge (2 ms) 2: [ RUN ] Simplification.ComplexBulge 2: 0:00:00.200 1M / 18M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.200 1M / 18M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.200 1M / 18M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.200 1M / 18M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge.grp 2: 0:00:00.200 1M / 18M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge started 2: 0:00:00.209 1173M / 1173M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge 2: 0:00:00.210 1173M / 1173M INFO General (edge_index.hpp : 156) Using small index (max_id = 21626308) 2: 0:00:00.239 1173M / 1173M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.294 1173M / 1173M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 16969 kmers, 13008 bytes occupied (6.13259 bits per kmer). 2: 0:00:00.294 1173M / 1173M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.324 1173M / 1173M INFO General (graphio.cpp : 190) Reading edges positions, ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge started 2: 0:00:00.324 1173M / 1173M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge 2: [ OK ] Simplification.ComplexBulge (154 ms) 2: [ RUN ] Simplification.BigComplexBulge 2: 0:00:00.354 1M / 18M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.355 1M / 18M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.355 1M / 18M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.355 1M / 18M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/big_complex_bulge/big_complex_bulge.grp 2: 0:00:00.355 1M / 18M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/big_complex_bulge/big_complex_bulge started 2: 0:00:00.405 1161M / 1161M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/big_complex_bulge/big_complex_bulge 2: 0:00:00.406 1161M / 1161M INFO General (edge_index.hpp : 156) Using small index (max_id = 21667994) 2: 0:00:00.427 1161M / 1161M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.463 1161M / 1161M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 65575 kmers, 48120 bytes occupied (5.87053 bits per kmer). 2: 0:00:00.463 1161M / 1161M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.492 1161M / 1161M INFO General (graphio.cpp : 190) Reading edges positions, ./src/test/debruijn/graph_fragments/big_complex_bulge/big_complex_bulge started 2: 0:00:00.492 1161M / 1161M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/big_complex_bulge/big_complex_bulge 2: [ OK ] Simplification.BigComplexBulge (192 ms) 2: [ RUN ] Simplification.RelativeCoverageRemover 2: 0:00:00.546 1M / 30M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.546 1M / 30M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.546 1M / 30M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.546 1M / 30M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/rel_cov_ec/constructed_graph.grp 2: 0:00:00.546 1M / 30M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/rel_cov_ec/constructed_graph started 2: 0:00:00.549 1M / 30M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/rel_cov_ec/constructed_graph 2: 0:00:00.549 1M / 30M INFO General (edge_index.hpp : 156) Using small index (max_id = 3036) 2: 0:00:00.554 1M / 30M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.585 1M / 30M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 100126 kmers, 73064 bytes occupied (5.83776 bits per kmer). 2: 0:00:00.586 2M / 30M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.596 2M / 30M INFO General (graphio.cpp : 190) Reading edges positions, ./src/test/debruijn/graph_fragments/rel_cov_ec/constructed_graph started 2: 0:00:00.598 2M / 30M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/rel_cov_ec/constructed_graph 2: 0:00:00.598 2M / 30M INFO General (simplification_test.cpp : 308) Relative coverage component removal: 2: [ OK ] Simplification.RelativeCoverageRemover (92 ms) 2: [ RUN ] Simplification.RelativeCoverageRemover1 2: 0:00:00.638 1M / 30M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.638 1M / 30M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.638 1M / 30M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.638 1M / 30M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge.grp 2: 0:00:00.638 1M / 30M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge started 2: 0:00:00.651 1173M / 1173M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge 2: 0:00:00.651 1173M / 1173M INFO General (edge_index.hpp : 156) Using small index (max_id = 21626308) 2: 0:00:00.678 1173M / 1173M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.733 1173M / 1173M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 16969 kmers, 13008 bytes occupied (6.13259 bits per kmer). 2: 0:00:00.733 1173M / 1173M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.761 1173M / 1173M INFO General (graphio.cpp : 190) Reading edges positions, ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge started 2: 0:00:00.761 1173M / 1173M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/complex_bulge/complex_bulge 2: 0:00:00.761 1173M / 1173M INFO General (simplification_test.cpp : 308) Relative coverage component removal: 2: [ OK ] Simplification.RelativeCoverageRemover1 (168 ms) 2: [ RUN ] Simplification.RelativeCoverageRemover2 2: 0:00:00.806 1M / 34M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.806 1M / 34M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.806 1M / 34M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.806 1M / 34M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/complex_bulge_2/graph.grp 2: 0:00:00.806 1M / 34M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/complex_bulge_2/graph started 2: 0:00:00.807 3M / 34M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/complex_bulge_2/graph 2: 0:00:00.808 3M / 34M INFO General (edge_index.hpp : 156) Using small index (max_id = 35260) 2: 0:00:00.808 3M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.810 3M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 5034 kmers, 4400 bytes occupied (6.99245 bits per kmer). 2: 0:00:00.810 3M / 34M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.811 3M / 34M INFO General (graphio.cpp : 185) No positions were saved 2: 0:00:00.811 3M / 34M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/complex_bulge_2/graph 2: 0:00:00.811 3M / 34M INFO General (simplification_test.cpp : 308) Relative coverage component removal: 2: [ OK ] Simplification.RelativeCoverageRemover2 (13 ms) 2: [ RUN ] Simplification.RelativeCoverageRemover3 2: 0:00:00.819 1M / 34M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.819 1M / 34M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.819 1M / 34M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.820 1M / 34M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/tipobulge/tipobulge.grp 2: 0:00:00.820 1M / 34M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/tipobulge/tipobulge started 2: 0:00:00.820 1M / 34M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/tipobulge/tipobulge 2: 0:00:00.820 1M / 34M INFO General (edge_index.hpp : 156) Using small index (max_id = 12354) 2: 0:00:00.820 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.820 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 1318 kmers, 1728 bytes occupied (10.4886 bits per kmer). 2: 0:00:00.820 1M / 34M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.821 1M / 34M INFO General (graphio.cpp : 185) No positions were saved 2: 0:00:00.821 1M / 34M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/tipobulge/tipobulge 2: 0:00:00.821 1M / 34M INFO General (simplification_test.cpp : 308) Relative coverage component removal: 2: [ OK ] Simplification.RelativeCoverageRemover3 (3 ms) 2: [ RUN ] Simplification.RelativeCoverageRemover4 2: 0:00:00.822 1M / 34M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.822 1M / 34M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.822 1M / 34M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.822 1M / 34M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/tipobulge_2/graph.grp 2: 0:00:00.822 1M / 34M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/tipobulge_2/graph started 2: 0:00:00.823 4M / 34M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/tipobulge_2/graph 2: 0:00:00.824 4M / 34M INFO General (edge_index.hpp : 156) Using small index (max_id = 36400) 2: 0:00:00.824 4M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.829 4M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 14278 kmers, 11072 bytes occupied (6.20367 bits per kmer). 2: 0:00:00.829 4M / 34M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.831 4M / 34M INFO General (graphio.cpp : 185) No positions were saved 2: 0:00:00.831 4M / 34M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/tipobulge_2/graph 2: 0:00:00.831 4M / 34M INFO General (simplification_test.cpp : 308) Relative coverage component removal: 2: [ OK ] Simplification.RelativeCoverageRemover4 (22 ms) 2: [ RUN ] Simplification.CompressorTest 2: 0:00:00.844 1M / 34M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.844 1M / 34M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.844 1M / 34M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:00.844 1M / 34M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/compression/graph.grp 2: 0:00:00.844 1M / 34M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/compression/graph started 2: 0:00:00.845 2M / 34M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/compression/graph 2: 0:00:00.846 2M / 34M INFO General (edge_index.hpp : 156) Using small index (max_id = 5512) 2: 0:00:00.846 2M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.846 2M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 295 kmers, 992 bytes occupied (26.9017 bits per kmer). 2: 0:00:00.846 2M / 34M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:00.847 2M / 34M INFO General (graphio.cpp : 185) No positions were saved 2: 0:00:00.847 2M / 34M INFO General (graphio.cpp : 156) Reading flanking coverage from ./src/test/debruijn/graph_fragments/compression/graph 2: [ OK ] Simplification.CompressorTest (3 ms) 2: [----------] 17 tests from Simplification (808 ms total) 2: 2: [----------] 9 tests from GraphConstruction 2: [ RUN ] GraphConstruction.SimpleThread 2: 0:00:00.847 1M / 34M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.847 1M / 34M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.847 1M / 34M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:00.848 1M / 34M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:00.848 1M / 34M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:00.848 1M / 34M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:00.848 1M / 34M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:00.853 1M / 34M INFO General (kmer_splitters.hpp : 131) Used 2 reads 2: 0:00:00.853 1M / 34M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:00.854 1M / 34M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 6 kmers in total. 2: 0:00:00.854 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:00.854 1M / 34M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:00.854 1M / 34M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:00.854 1M / 34M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:00.854 1M / 34M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:00.856 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 6 kmers. 2: 0:00:00.856 1M / 34M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:00.858 1M / 34M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 7 kmers in total. 2: 0:00:00.858 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.858 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 7 kmers, 4800 bytes occupied (5485.71 bits per kmer). 2: 0:00:00.858 1M / 34M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:00.893 1M / 34M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:00.942 1M / 34M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:00.942 1M / 34M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:00.942 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:00.942 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 1 sequences extracted 2: 0:00:00.942 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:00.942 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:00.942 1M / 34M INFO General (debruijn_graph_constructor: 487) Total 2 edges to create 2: 0:00:00.942 1M / 34M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:00.942 1M / 34M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:00.942 1M / 34M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:00.942 1M / 34M INFO General (debruijn_graph_constructor: 503) Total 2 vertices to create 2: 0:00:00.942 1M / 34M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: [ OK ] GraphConstruction.SimpleThread (96 ms) 2: [ RUN ] GraphConstruction.SimpleThread2 2: 0:00:00.943 1M / 34M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:00.943 1M / 34M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:00.943 1M / 34M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:00.943 1M / 34M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:00.943 1M / 34M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:00.943 1M / 34M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:00.943 1M / 34M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:00.946 1M / 34M INFO General (kmer_splitters.hpp : 131) Used 4 reads 2: 0:00:00.947 1M / 34M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:00.948 1M / 34M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 8 kmers in total. 2: 0:00:00.948 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:00.948 1M / 34M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:00.948 1M / 34M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:00.948 1M / 34M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:00.948 1M / 34M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:00.950 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 8 kmers. 2: 0:00:00.950 1M / 34M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:00.952 1M / 34M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 9 kmers in total. 2: 0:00:00.952 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:00.952 1M / 34M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 9 kmers, 6400 bytes occupied (5688.89 bits per kmer). 2: 0:00:00.952 1M / 34M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:00.986 1M / 34M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:00.987 1M / 34M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:00.987 1M / 34M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:00.987 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:00.987 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 1 sequences extracted 2: 0:00:00.987 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:00.987 1M / 34M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:00.987 1M / 34M INFO General (debruijn_graph_constructor: 487) Total 2 edges to create 2: 0:00:00.987 1M / 34M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:00.987 1M / 34M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:00.987 1M / 34M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:00.987 1M / 34M INFO General (debruijn_graph_constructor: 503) Total 2 vertices to create 2: 0:00:00.987 1M / 34M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: [ OK ] GraphConstruction.SimpleThread2 (273 ms) 2: [ RUN ] GraphConstruction.SplitThread 2: 0:00:01.216 1M / 34M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.216 1M / 34M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.216 1M / 34M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:01.216 1M / 34M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.216 1M / 34M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.216 1M / 34M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.216 1M / 34M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.257 1M / 36M INFO General (kmer_splitters.hpp : 131) Used 4 reads 2: 0:00:01.257 1M / 36M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.259 1M / 36M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 11 kmers in total. 2: 0:00:01.259 1M / 36M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:01.259 1M / 36M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.259 1M / 36M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.259 1M / 36M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.259 1M / 36M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.268 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 11 kmers. 2: 0:00:01.268 1M / 36M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.269 1M / 36M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 12 kmers in total. 2: 0:00:01.269 1M / 36M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.270 1M / 36M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 12 kmers, 5600 bytes occupied (3733.33 bits per kmer). 2: 0:00:01.270 1M / 36M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:01.278 1M / 36M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:01.278 1M / 36M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:01.279 1M / 36M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:01.279 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:01.279 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 3 sequences extracted 2: 0:00:01.279 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:01.279 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:01.279 1M / 36M INFO General (debruijn_graph_constructor: 487) Total 6 edges to create 2: 0:00:01.279 1M / 36M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:01.279 1M / 36M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:01.279 1M / 36M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:01.279 1M / 36M INFO General (debruijn_graph_constructor: 503) Total 4 vertices to create 2: 0:00:01.279 1M / 36M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: [ OK ] GraphConstruction.SplitThread (69 ms) 2: [ RUN ] GraphConstruction.SplitThread2 2: 0:00:01.285 1M / 36M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.285 1M / 36M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.285 1M / 36M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:01.285 1M / 36M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.285 1M / 36M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.285 1M / 36M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.285 1M / 36M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.289 1M / 36M INFO General (kmer_splitters.hpp : 131) Used 4 reads 2: 0:00:01.289 1M / 36M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.290 1M / 36M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 11 kmers in total. 2: 0:00:01.290 1M / 36M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:01.290 1M / 36M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.290 1M / 36M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.290 1M / 36M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.290 1M / 36M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.296 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 11 kmers. 2: 0:00:01.296 1M / 36M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.298 1M / 36M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 11 kmers in total. 2: 0:00:01.298 1M / 36M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.298 1M / 36M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 11 kmers, 5600 bytes occupied (4072.73 bits per kmer). 2: 0:00:01.298 1M / 36M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:01.299 1M / 36M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:01.299 1M / 36M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:01.299 1M / 36M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:01.299 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:01.299 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 4 sequences extracted 2: 0:00:01.299 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:01.299 1M / 36M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:01.299 1M / 36M INFO General (debruijn_graph_constructor: 487) Total 8 edges to create 2: 0:00:01.299 1M / 36M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:01.299 1M / 36M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:01.299 1M / 36M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:01.300 1M / 36M INFO General (debruijn_graph_constructor: 503) Total 4 vertices to create 2: 0:00:01.300 1M / 36M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: [ OK ] GraphConstruction.SplitThread2 (23 ms) 2: [ RUN ] GraphConstruction.Buldge 2: 0:00:01.308 1M / 36M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.308 1M / 36M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.308 1M / 36M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:01.308 1M / 36M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.308 1M / 36M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.308 1M / 36M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.308 1M / 36M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.313 1M / 40M INFO General (kmer_splitters.hpp : 131) Used 4 reads 2: 0:00:01.313 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.316 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 12 kmers in total. 2: 0:00:01.316 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:01.316 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.316 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.316 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.316 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.320 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 12 kmers. 2: 0:00:01.320 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.321 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 12 kmers in total. 2: 0:00:01.321 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.322 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 12 kmers, 5600 bytes occupied (3733.33 bits per kmer). 2: 0:00:01.322 1M / 40M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:01.322 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:01.323 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:01.323 1M / 40M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:01.323 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:01.323 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 2 sequences extracted 2: 0:00:01.323 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:01.323 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:01.323 1M / 40M INFO General (debruijn_graph_constructor: 487) Total 4 edges to create 2: 0:00:01.323 1M / 40M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:01.323 1M / 40M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:01.323 1M / 40M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:01.323 1M / 40M INFO General (debruijn_graph_constructor: 503) Total 2 vertices to create 2: 0:00:01.323 1M / 40M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: [ OK ] GraphConstruction.Buldge (16 ms) 2: [ RUN ] GraphConstruction.CondenseSimple 2: 0:00:01.324 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.324 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.324 1M / 40M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:01.324 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.324 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.324 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.324 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.333 1M / 40M INFO General (kmer_splitters.hpp : 131) Used 8 reads 2: 0:00:01.333 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.338 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 13 kmers in total. 2: 0:00:01.338 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:01.338 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.338 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.338 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.338 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.342 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 13 kmers. 2: 0:00:01.342 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.349 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 13 kmers in total. 2: 0:00:01.349 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.350 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 13 kmers, 5600 bytes occupied (3446.15 bits per kmer). 2: 0:00:01.350 1M / 40M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:01.468 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:01.468 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:01.468 1M / 40M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:01.468 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:01.469 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 3 sequences extracted 2: 0:00:01.469 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:01.469 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:01.469 1M / 40M INFO General (debruijn_graph_constructor: 487) Total 6 edges to create 2: 0:00:01.469 1M / 40M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:01.469 1M / 40M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:01.469 1M / 40M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:01.469 1M / 40M INFO General (debruijn_graph_constructor: 503) Total 3 vertices to create 2: 0:00:01.469 1M / 40M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: [ OK ] GraphConstruction.CondenseSimple (190 ms) 2: [ RUN ] GraphConstruction.TestKmerStoringIndex 2: 0:00:01.515 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.515 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.515 1M / 40M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:01.515 1M / 40M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:01.515 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.515 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.516 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.516 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.522 1M / 40M INFO General (kmer_splitters.hpp : 131) Used 8 reads 2: 0:00:01.522 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.524 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 13 kmers in total. 2: 0:00:01.525 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:01.525 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.525 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.525 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.525 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.530 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 13 kmers. 2: 0:00:01.530 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.533 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 13 kmers in total. 2: 0:00:01.533 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.534 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 13 kmers, 5600 bytes occupied (3446.15 bits per kmer). 2: 0:00:01.534 1M / 40M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:01.535 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:01.536 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:01.536 1M / 40M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:01.536 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:01.536 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 3 sequences extracted 2: 0:00:01.537 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:01.537 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:01.537 1M / 40M INFO General (debruijn_graph_constructor: 487) Total 6 edges to create 2: 0:00:01.537 1M / 40M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:01.537 1M / 40M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:01.537 1M / 40M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:01.537 1M / 40M INFO General (debruijn_graph_constructor: 503) Total 3 vertices to create 2: 0:00:01.537 1M / 40M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: 0:00:01.537 1M / 40M INFO General (graph_construction.hpp : 79) Building index with from graph 2: 0:00:01.537 1M / 40M INFO General (edge_index.hpp : 156) Using small index (max_id = 9) 2: 0:00:01.537 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.537 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 13 kmers, 800 bytes occupied (492.308 bits per kmer). 2: 0:00:01.537 1M / 40M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: [ OK ] GraphConstruction.TestKmerStoringIndex (24 ms) 2: [ RUN ] GraphConstruction.TestKmerFreeIndex 2: 0:00:01.538 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.538 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.538 1M / 40M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:01.538 1M / 40M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=5 2: 0:00:01.538 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.538 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.538 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.538 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.543 1M / 40M INFO General (kmer_splitters.hpp : 131) Used 8 reads 2: 0:00:01.543 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.546 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 13 kmers in total. 2: 0:00:01.546 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:01.546 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.546 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.546 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.546 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.549 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 13 kmers. 2: 0:00:01.549 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.551 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 13 kmers in total. 2: 0:00:01.551 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.552 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 13 kmers, 5600 bytes occupied (3446.15 bits per kmer). 2: 0:00:01.552 1M / 40M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:01.553 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:01.553 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:01.554 1M / 40M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:01.554 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:01.554 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 3 sequences extracted 2: 0:00:01.554 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:01.554 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:01.554 1M / 40M INFO General (debruijn_graph_constructor: 487) Total 6 edges to create 2: 0:00:01.554 1M / 40M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:01.554 1M / 40M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:01.554 1M / 40M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:01.554 1M / 40M INFO General (debruijn_graph_constructor: 503) Total 3 vertices to create 2: 0:00:01.554 1M / 40M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: 0:00:01.554 1M / 40M INFO General (graph_construction.hpp : 79) Building index with from graph 2: 0:00:01.554 1M / 40M INFO General (edge_index.hpp : 156) Using small index (max_id = 9) 2: 0:00:01.554 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.554 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 13 kmers, 800 bytes occupied (492.308 bits per kmer). 2: 0:00:01.554 1M / 40M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: [ OK ] GraphConstruction.TestKmerFreeIndex (17 ms) 2: [ RUN ] GraphConstruction.SimpleTestEarlyPairedInfo 2: 0:00:01.555 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.555 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.555 1M / 40M INFO General (edge_index.hpp : 113) Size of edge index entries: 12/8 2: 0:00:01.555 1M / 40M INFO General (graph_construction.hpp : 45) Constructing DeBruijn graph for k=3 2: 0:00:01.555 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.555 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.555 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.555 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.558 1M / 40M INFO General (kmer_splitters.hpp : 131) Used 4 reads 2: 0:00:01.558 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.563 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 5 kmers in total. 2: 0:00:01.563 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 438) Building kmer index 2: 0:00:01.563 1M / 40M INFO General (kmer_index_builder.hpp : 243) Splitting kmer instances into 10 files using 1 threads. This might take a while. 2: 0:00:01.563 1M / 40M INFO General (file_limit.hpp : 42) Open file limit set to 1024 2: 0:00:01.563 1M / 40M INFO General (kmer_splitter.hpp : 93) Memory available for splitting buffers: 5.72662e+09 Gb 2: 0:00:01.563 1M / 40M INFO General (kmer_splitter.hpp : 101) Using cell size of 6710886 2: 0:00:01.564 601M / 601M INFO General (kmer_splitters.hpp : 199) Used 5 kmers. 2: 0:00:01.564 1M / 40M INFO General (kmer_index_builder.hpp : 249) Starting k-mer counting. 2: 0:00:01.569 1M / 40M INFO General (kmer_index_builder.hpp : 260) K-mer counting done. There are 6 kmers in total. 2: 0:00:01.569 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.570 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 6 kmers, 4000 bytes occupied (5333.33 bits per kmer). 2: 0:00:01.570 1M / 40M INFO General (kmer_index_builder.hpp : 169) Merging final buckets. 2: 0:00:01.570 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 100) Building k-mer extensions from k+1-mers 2: 0:00:01.570 1M / 40M INFO DeBruijnExtensionIndexBu (kmer_extension_index_build: 105) Building k-mer extensions from k+1-mers finished. 2: 0:00:01.571 1M / 40M INFO General (graph_construction.hpp : 57) Condensing graph 2: 0:00:01.571 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 354) Extracting unbranching paths 2: 0:00:01.571 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 373) Extracting unbranching paths finished. 5 sequences extracted 2: 0:00:01.571 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 309) Collecting perfect loops 2: 0:00:01.571 1M / 40M INFO UnbranchingPathExtractor (debruijn_graph_constructor: 342) Collecting perfect loops finished. 0 loops collected 2: 0:00:01.571 1M / 40M INFO General (debruijn_graph_constructor: 487) Total 10 edges to create 2: 0:00:01.571 1M / 40M INFO General (debruijn_graph_constructor: 489) Collecting link records 2: 0:00:01.571 1M / 40M INFO General (debruijn_graph_constructor: 491) Ordering link records 2: 0:00:01.571 1M / 40M INFO General (debruijn_graph_constructor: 493) Sorting done 2: 0:00:01.571 1M / 40M INFO General (debruijn_graph_constructor: 503) Total 6 vertices to create 2: 0:00:01.571 1M / 40M INFO General (debruijn_graph_constructor: 506) Connecting the graph 2: 0:00:01.571 1M / 40M INFO General (graph_construction.hpp : 79) Building index with from graph 2: 0:00:01.571 1M / 40M INFO General (edge_index.hpp : 156) Using small index (max_id = 13) 2: 0:00:01.571 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.571 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 5 kmers, 800 bytes occupied (1280 bits per kmer). 2: 0:00:01.571 1M / 40M INFO General (edge_index_builders.hpp : 252) Collecting edge information from graph, this takes a while. 2: 0:00:01.571 1M / 40M INFO General (graph_construction.hpp : 93) Filling coverage index 2: 0:00:01.571 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 395) Building perfect hash indices 2: 0:00:01.572 1M / 40M INFO K-mer Index Building (kmer_index_builder.hpp : 431) Index built. Total 5 kmers, 3200 bytes occupied (5120 bits per kmer). 2: 0:00:01.572 1M / 40M INFO General (coverage_hash_map_builder.: 47) Collecting k-mer coverage information from reads, this takes a while. 2: 0:00:01.572 1M / 40M INFO General (graph_construction.hpp : 99) Filling coverage and flanking coverage from PHM 2: 0:00:01.572 1M / 40M INFO General (graph_pack.cpp : 77) Normalizing k-mer map. Total 0 kmers to process 2: 0:00:01.572 1M / 40M INFO General (graph_pack.cpp : 79) Normalizing done 2: 0:00:01.581 10M / 40M INFO General (sequence_mapper_notifier.h: 95) Total 2 reads processed 2: [ OK ] GraphConstruction.SimpleTestEarlyPairedInfo (32 ms) 2: [----------] 9 tests from GraphConstruction (740 ms total) 2: 2: [----------] 3 tests from Io 2: [ RUN ] Io.Order 2: 0:00:01.586 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.587 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.644 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.644 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: [ OK ] Io.Order (57 ms) 2: [ RUN ] Io.PairedInfo 2: [ OK ] Io.PairedInfo (6 ms) 2: [ RUN ] Io.KmerMapper 2: [ OK ] Io.KmerMapper (0 ms) 2: [----------] 3 tests from Io (63 ms total) 2: 2: [----------] 8 tests from PathExtend 2: [ RUN ] PathExtend.BidirectionalPathConstructor 2: 0:00:01.650 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.650 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.650 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.650 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.652 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathConstructor (2 ms) 2: [ RUN ] PathExtend.BidirectionalPathAddRemove 2: 0:00:01.652 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.652 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.652 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.652 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.653 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathAddRemove (1 ms) 2: [ RUN ] PathExtend.BidirectionalPathAddRemoveGaps 2: 0:00:01.653 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.653 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.653 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.653 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.653 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathAddRemoveGaps (0 ms) 2: [ RUN ] PathExtend.BidirectionalPathEquals 2: 0:00:01.653 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.653 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.653 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.653 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.653 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathEquals (1 ms) 2: [ RUN ] PathExtend.BidirectionalPathSubpaths 2: 0:00:01.653 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.654 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathSubpaths (0 ms) 2: [ RUN ] PathExtend.BidirectionalPathAddRemoveConjugate 2: 0:00:01.654 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.654 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathAddRemoveConjugate (0 ms) 2: [ RUN ] PathExtend.BidirectionalPathSearch 2: 0:00:01.654 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.654 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.654 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.655 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathSearch (1 ms) 2: [ RUN ] PathExtend.BidirectionalPathLoopDetector 2: 0:00:01.655 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.655 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.655 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.655 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.655 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] PathExtend.BidirectionalPathLoopDetector (0 ms) 2: [----------] 8 tests from PathExtend (5 ms total) 2: 2: [----------] 23 tests from OverlapRemoval 2: [ RUN ] OverlapRemoval.BasicNoDiff 2: 0:00:01.655 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.655 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.655 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.655 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.656 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] OverlapRemoval.BasicNoDiff (1 ms) 2: [ RUN ] OverlapRemoval.BasicDiff 2: 0:00:01.656 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.656 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.656 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.656 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.656 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: [ OK ] OverlapRemoval.BasicDiff (0 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatConjugateEdges 2: 0:00:01.656 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.656 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.656 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation.grp 2: 0:00:01.656 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation started 2: 0:00:01.657 1M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/path_extend/distance_estimation 2: 0:00:01.657 1M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: [ OK ] OverlapRemoval.BasicRepeatConjugateEdges (1 ms) 2: [ RUN ] OverlapRemoval.BasicRepeat 2: 0:00:01.657 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.657 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.657 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.657 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.669 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.669 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: [ OK ] OverlapRemoval.BasicRepeat (13 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatUneven 2: 0:00:01.669 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.669 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.670 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.670 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.677 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.679 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: [ OK ] OverlapRemoval.BasicRepeatUneven (10 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatAllDisconnected 2: 0:00:01.680 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.680 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.680 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.680 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.687 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.687 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.687 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.BasicRepeatAllDisconnected (7 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatNoEffect 2: 0:00:01.687 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.687 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.687 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.687 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.694 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.695 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: [ OK ] OverlapRemoval.BasicRepeatNoEffect (8 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatEnd 2: 0:00:01.695 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.695 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.695 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.695 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.702 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.702 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.702 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.BasicRepeatEnd (7 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatEndRetain 2: 0:00:01.702 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.702 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.702 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.702 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.709 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.709 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.709 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.BasicRepeatEndRetain (8 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatStart 2: 0:00:01.710 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.710 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.710 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.710 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.716 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.717 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.717 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.BasicRepeatStart (7 ms) 2: [ RUN ] OverlapRemoval.BasicRepeatStartRetain 2: 0:00:01.717 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.717 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.717 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.717 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.724 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.724 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.724 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.BasicRepeatStartRetain (8 ms) 2: [ RUN ] OverlapRemoval.BasicDeduplication 2: 0:00:01.724 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.724 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.725 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.725 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.731 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] OverlapRemoval.BasicDeduplication (7 ms) 2: [ RUN ] OverlapRemoval.BasicDeduplicationEqual 2: 0:00:01.732 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.732 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.732 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.732 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.739 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] OverlapRemoval.BasicDeduplicationEqual (7 ms) 2: [ RUN ] OverlapRemoval.DeduplicateDiff 2: 0:00:01.739 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.739 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.739 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.739 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.746 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] OverlapRemoval.DeduplicateDiff (7 ms) 2: [ RUN ] OverlapRemoval.DeduplicateDiffGap 2: 0:00:01.746 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.746 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.746 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.746 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.753 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] OverlapRemoval.DeduplicateDiffGap (8 ms) 2: [ RUN ] OverlapRemoval.DeduplicateMinEdgeLen1 2: 0:00:01.753 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.753 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.754 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.754 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.760 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] OverlapRemoval.DeduplicateMinEdgeLen1 (7 ms) 2: [ RUN ] OverlapRemoval.DeduplicateMinEdgeLen2 2: 0:00:01.761 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.761 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.761 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.761 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.768 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] OverlapRemoval.DeduplicateMinEdgeLen2 (7 ms) 2: [ RUN ] OverlapRemoval.EndEndMinEdgeLen 2: 0:00:01.768 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.768 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.768 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.768 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.775 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.775 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.775 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.EndEndMinEdgeLen (8 ms) 2: [ RUN ] OverlapRemoval.Tricky0 2: 0:00:01.776 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.776 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.776 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.776 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.783 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.783 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.783 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.Tricky0 (7 ms) 2: [ RUN ] OverlapRemoval.Tricky1 2: 0:00:01.783 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.783 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.783 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.783 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.790 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.790 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.790 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.Tricky1 (8 ms) 2: [ RUN ] OverlapRemoval.Tricky2 2: 0:00:01.791 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.791 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.791 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.791 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.797 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.798 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.798 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.Tricky2 (7 ms) 2: [ RUN ] OverlapRemoval.BasicMinEdgeLen 2: 0:00:01.798 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.798 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.798 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.798 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.805 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.805 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.805 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.BasicMinEdgeLen (7 ms) 2: [ RUN ] OverlapRemoval.OverlapWithMiddle 2: 0:00:01.805 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.805 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.805 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.805 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.812 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.812 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 116) Marking start/end overlaps 2: 0:00:01.812 4M / 40M INFO OverlapRemover (overlap_remover.hpp : 119) Marking remaining overlaps 2: [ OK ] OverlapRemoval.OverlapWithMiddle (8 ms) 2: [----------] 23 tests from OverlapRemoval (158 ms total) 2: 2: [----------] 5 tests from GraphAligner 2: [ RUN ] GraphAligner.EdlibSHWFULLTest 2: 0:00:01.813 1M / 40M INFO General (graph_alignment_test.cpp : 32) Edlib: Result status = 0 2: [ OK ] GraphAligner.EdlibSHWFULLTest (0 ms) 2: [ RUN ] GraphAligner.EdlibSHWFULLTestZero 2: 0:00:01.813 1M / 40M INFO General (graph_alignment_test.cpp : 62) Edlib: Result status = 0 2: 0:00:01.813 1M / 40M INFO General (graph_alignment_test.cpp : 64) Edlib: Result ed = -1 2: [ OK ] GraphAligner.EdlibSHWFULLTestZero (0 ms) 2: [ RUN ] GraphAligner.TrivialTest 2: 0:00:01.813 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:01.813 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:01.813 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:01.813 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:01.820 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: 0:00:01.832 5M / 40M INFO General (bwa_index.cpp : 173) Using BWA IS algorithm 2: [ OK ] GraphAligner.TrivialTest (959 ms) 2: [ RUN ] GraphAligner.DijkstraOneEdgeTest 2: 0:00:02.772 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:02.775 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:02.775 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:02.775 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:03.416 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] GraphAligner.DijkstraOneEdgeTest (644 ms) 2: [ RUN ] GraphAligner.DijkstraGrowEndsTest 2: 0:00:03.417 1M / 40M INFO GraphCore (graph_core.hpp : 672) Graph created, vertex min_id: 3, edge min_id: 3 2: 0:00:03.417 1M / 40M INFO GraphCore (graph_core.hpp : 673) Vertex size: 48, edge size: 40 2: 0:00:03.417 1M / 40M INFO General (graphio.cpp : 40) Trying to read conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation.grp 2: 0:00:03.417 1M / 40M INFO General (graphio.cpp : 51) Reading conjugate de bruijn graph from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation started 2: 0:00:03.424 4M / 40M INFO General (graphio.cpp : 140) Reading coverage from ./src/test/debruijn/graph_fragments/ecoli_400k/distance_estimation 2: [ OK ] GraphAligner.DijkstraGrowEndsTest (8 ms) 2: [----------] 5 tests from GraphAligner (1612 ms total) 2: 2: [----------] Global test environment tear-down 2: [==========] 98 tests from 10 test suites ran. (3425 ms total) 2: [ PASSED ] 98 tests. 2/2 Test #2: debruijn_test .................... Passed 3.43 sec 100% tests passed, 0 tests failed out of 2 Total Test time (real) = 3.47 sec make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_prep -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_auto_install --destdir=debian/spades/ -O--sourcedirectory=assembler/src -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/spades-4.0.0\+really3.15.5\+dfsg/debian/spades AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/assembler/src -B/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/metaspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/plasmidspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/rnaspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/metaviralspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/metaplasmidspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/rnaviralspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/coronaspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/truspades.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades_init.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/VERSION -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset/ecoli_1K_1.fq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset/operons_1K.gff -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset/reference_1K.fa.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset/ecoli_1K_2.fq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset/genes_1K.txt -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset/operons_1K.txt -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset/genes_1K.gff -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_truspades -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_truspades/B_R2.fastq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_truspades/A_R1.fastq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_truspades/B_R1.fastq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_truspades/A_R2.fastq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_plasmid -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_plasmid/pl2.fq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/test_dataset_plasmid/pl1.fq.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/biosynthetic_spades_hmms -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/biosynthetic_spades_hmms/AMP.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/biosynthetic_spades_hmms/KS.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/biosynthetic_spades_hmms/TE.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/biosynthetic_spades_hmms/CStart.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/biosynthetic_spades_hmms/AT.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/biosynthetic_spades_hmms/KR.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/coronaspades_hmms -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/coronaspades_hmms/Pfam-A.SARS-CoV-2.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/coronaspades_hmms/Phan-CoV.hmm.gz -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/manual.html -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/README.md -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/truspades_manual.html -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/rnaspades_manual.html -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/LICENSE -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/GPLv2.txt -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades-core -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/large_genome_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/tsa.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/construction.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/careful_mda_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/careful_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/metaplasmid_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/simplification.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/config.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/moleculo_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/plasmid_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/meta_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/metaviral_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/isolate_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/detail_info_printer.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/mda_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/distance_estimation.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/rna_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/pe_params.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/rnaviral_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/toy.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/debruijn/hmm_mode.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades-hammer -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/hammer -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/hammer/config.info -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades-ionhammer -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/configs/ionhammer -- Installing: 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/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades-convert-bin-to-fasta -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades-gbuilder -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades-gmapper -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spaligner -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spaligner/spaligner_config.yaml -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/spades-gsimplifier -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/cds-subgraphs -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/cds-mapping-stats -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/bin/mag-improve -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline/run_contig_breaker.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline/commands_parser.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline/process_cfg.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline/support.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline/options_storage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline/options_parser.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/compress_all.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/correction_iteration_script.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/preprocess_interlaced_reads.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/check_test_script.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/preprocess_contigs.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/breaking_scaffolds_script.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/postprocessing_script.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/plasmid_glue.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//scripts/copy_files.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/postprocessing_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/spades_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/check_test_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/terminating_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/breaking_scaffolds_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/before_start_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/preprocess_reads_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/__init__.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/pipeline.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/spades_iteration_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/error_correction_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//stages/correction_stage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/break_by_coverage.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/moleculo_filter_contigs.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/id_generation.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/__init__.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/barcode_extraction.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/reference_construction.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/generate_quality.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/moleculo_postprocessing.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/launch_options.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//truspades/string_dist_utils.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//common -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//common/alignment.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//common/parallel_launcher.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//common/__init__.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//common/SeqIO.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//common/sam_parser.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//executors -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//executors/executors.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//executors/executor_save_yaml.py -- Installing: /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/spades/usr/share/spades/spades_pipeline//executors/executor_local.py make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/obj-x86_64-linux-gnu' debian/rules execute_after_dh_auto_install make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' # Use Debian-packaged yaml module find debian/spades \ -type f \ -exec sed -i 's/pyyaml[2|3]/yaml/' {} + mkdir -p debian/spades/usr/libexec/spades/ mv debian/spades/usr/bin/* debian/spades/usr/libexec/spades/ rm -f debian/spades/usr/share/spades/*.html rm -f debian/spades/usr/share/spades/manual.md rm -f debian/spades/usr/share/spades/GPLv2.txt rm -f debian/spades/usr/share/spades/README.md rm -f debian/spades/usr/share/spades/LICENSE make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_install -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_installdocs -O--sourcedirectory=assembler/src -O--buildsystem=cmake debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' LANG="C" LANGUAGE="en_US:en" LC_ALL=C.UTF-8 lynx -dump assembler/changelog.html > changelog dh_installchangelogs changelog rm changelog make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_installexamples -O--sourcedirectory=assembler/src -O--buildsystem=cmake debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' mkdir -p /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/man asciidoctor -a docdate='' -b manpage /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/man_src/*.adoc cp /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/man_src/*.? /build/reproducible-path/spades-4.0.0+really3.15.5+dfsg/debian/man dh_installman make[1]: Leaving directory '/build/reproducible-path/spades-4.0.0+really3.15.5+dfsg' dh_python3 -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_installsystemduser -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_lintian -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_perl -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_link -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_strip_nondeterminism -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_compress -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_fixperms -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_missing -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_dwz -a -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_strip -a -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_makeshlibs -a -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_shlibdeps -a -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_installdeb -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_gencontrol -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_md5sums -O--sourcedirectory=assembler/src -O--buildsystem=cmake dh_builddeb -O--sourcedirectory=assembler/src -O--buildsystem=cmake dpkg-deb: building package 'spades' in '../spades_4.0.0+really3.15.5+dfsg-1_amd64.deb'. dpkg-deb: building package 'spades-dbgsym' in '../spades-dbgsym_4.0.0+really3.15.5+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../spades_4.0.0+really3.15.5+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../spades_4.0.0+really3.15.5+dfsg-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: user script /srv/workspace/pbuilder/1790708/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/1790708/tmp/hooks/B01_cleanup finished 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/1790708 and its subdirectories I: Current time: Wed Sep 3 14:26:09 +14 2025 I: pbuilder-time-stamp: 1756859169