Running as unit: rb-build-arm64_23-67806.service ==================================================================================== Sun Nov 24 12:44:21 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_23) on jenkins, called using "codethink03-arm64 codethink04-arm64" as arguments. Sun Nov 24 12:44:21 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-tSPrJ98P" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Nov 24 12:44:21 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Sun Nov 24 12:44:21 UTC 2024 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-L4MzaS' Sun Nov 24 12:44:22 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Sun Nov 24 12:44:22 UTC 2024 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-ZL0TKL' ok, let's check if rapmap is building anywhere yet… ok, rapmap is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of rapmap in unstable on arm64 on jenkins now. 1st build will be done on codethink03-arm64.debian.net. 2nd build will be done on codethink04-arm64.debian.net. ============================================================================= Sun Nov 24 12:44:44 UTC 2024 I: starting to build rapmap/unstable/arm64 on jenkins on '2024-11-24 12:44' Sun Nov 24 12:44:44 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_23/67806/console.log 1732452284 arm64 unstable rapmap Sun Nov 24 12:44:44 UTC 2024 I: Downloading source for unstable/rapmap=0.15.0+dfsg-4 --2024-11-24 12:44:44-- http://deb.debian.org/debian/pool/main/r/rapmap/rapmap_0.15.0%2bdfsg-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2322 (2.3K) [text/prs.lines.tag] Saving to: ‘rapmap_0.15.0+dfsg-4.dsc’ 0K .. 100% 323M=0s 2024-11-24 12:44:44 (323 MB/s) - ‘rapmap_0.15.0+dfsg-4.dsc’ saved [2322/2322] --2024-11-24 12:44:44-- http://deb.debian.org/debian/pool/main/r/rapmap/rapmap_0.15.0%2bdfsg-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2322 (2.3K) [text/prs.lines.tag] Saving to: ‘rapmap_0.15.0+dfsg-4.dsc’ 0K .. 100% 323M=0s 2024-11-24 12:44:44 (323 MB/s) - ‘rapmap_0.15.0+dfsg-4.dsc’ saved [2322/2322] Sun Nov 24 12:44:44 UTC 2024 I: rapmap_0.15.0+dfsg-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: rapmap Binary: rapmap, rapmap-example-data, rapmap-dev Architecture: any all Version: 0.15.0+dfsg-4 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Michael R. Crusoe Homepage: https://github.com/COMBINE-lab/RapMap Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/rapmap Vcs-Git: https://salsa.debian.org/med-team/rapmap.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, zlib1g-dev, libdivsufsort-dev, libcereal-dev, libjellyfish-2.0-dev, libjemalloc-dev, libsimde-dev, libsparsehash-dev, libspdlog-dev, libtclap-dev, pkg-config, python3-markdown, python3 Package-List: rapmap deb science optional arch=any rapmap-dev deb science optional arch=all rapmap-example-data deb science optional arch=all Checksums-Sha1: 0c4a16003c0d2fe77679260ebdb6e21792f862f0 624916 rapmap_0.15.0+dfsg.orig.tar.xz 32044b4fcb178f5e7b2495f00c5253358ad9d741 15008 rapmap_0.15.0+dfsg-4.debian.tar.xz Checksums-Sha256: 17068c4f664e07bec3ade28d624e5b84ef240b116bcc39e5b495d73b2d87ede5 624916 rapmap_0.15.0+dfsg.orig.tar.xz 4267978d5484cb29f0a7993df95e6ce48006b946cb6e2d8498716db7e40138af 15008 rapmap_0.15.0+dfsg-4.debian.tar.xz Files: c52551692c7480f0c1a46478595dd24b 624916 rapmap_0.15.0+dfsg.orig.tar.xz 624fa352250052cb177e582f3d50161d 15008 rapmap_0.15.0+dfsg-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmYBufUACgkQPCZ2P2xn 5uL8zRAAgxcnDWblU3dZFeCPt3A1A86+92J2q7BZTAeYdMuybryMTiNeZQyuggo/ Jd4RDWqP8bbGRig6s6wqm9cPNtELDRpjVYMUUgG3ond3b5K2mUJWk9/PaeH6HCne D+JTO0tIzi/IYSAEO3YieqCXTZHpIggqCYB7+bECk1KjV/pjF8PWMRk6NikCuVdM D07xl3IzMsL6/crI+O193JsHtdur/OnSHcnB6mkTbr6HMU/pFZ+RdAWW33RuRj8J O9W9vTQ4O3zZsLwc8kyG7S6OK1p7qM+2lbVln+H/ojvTb6nlPrqxi7+gpfSI+opt VT5ptkJV1rXTLFYTbp12Gd7spSBoZkq0Fv3pJCb0hKYj1gwqj1rgmK4xt4kvU5Sy c4Zu4s5HOGqShskfcp6QCXPmidTFUrYPdHXg2PGGWKu2eHx55DTQlZiWho4NSEMn x0lKGgnOgl/WLgRZuZrZ6mAzRUbJcz6GXmraekWLlhi5UmnFfzsj3sND1ivBbYYz erva/LDvjxPr8SUpclMbYZkw1IHcAsU680o81G3/gHmaW8+kfaKaCrm2cmJQqxRd vXZVixcM6FmKcp8VgIURtL3pedTuQXR1DyZunnmvM2lJyBPXzvN5jIW2y/dH4Gjv JRw1rOujMJDQiynxCclWKNiBXsHN9HTdlCuN5n5Cksp+f6d5uZI= =5gwA -----END PGP SIGNATURE----- Sun Nov 24 12:44:44 UTC 2024 I: Checking whether the package is not for us Sun Nov 24 12:44:44 UTC 2024 I: Starting 1st build on remote node codethink03-arm64.debian.net. Sun Nov 24 12:44:44 UTC 2024 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Sun Nov 24 12:44:44 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Sun Nov 24 12:44:44 UTC 2024 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-Dbx0VH' ==================================================================================== Sat Dec 27 19:07:45 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "1 rapmap unstable /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q 0.15.0+dfsg-4" as arguments. Sat Dec 27 19:07:45 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-4anZeuxL" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Dec 27 19:07:45 UTC 2025 I: Downloading source for unstable/rapmap=0.15.0+dfsg-4 Reading package lists... NOTICE: 'rapmap' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/rapmap.git Please use: git clone https://salsa.debian.org/med-team/rapmap.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 642 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main rapmap 0.15.0+dfsg-4 (dsc) [2322 B] Get:2 http://deb.debian.org/debian unstable/main rapmap 0.15.0+dfsg-4 (tar) [625 kB] Get:3 http://deb.debian.org/debian unstable/main rapmap 0.15.0+dfsg-4 (diff) [15.0 kB] Fetched 642 kB in 0s (23.6 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'rapmap' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/rapmap.git Please use: git clone https://salsa.debian.org/med-team/rapmap.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 642 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main rapmap 0.15.0+dfsg-4 (dsc) [2322 B] Get:2 http://deb.debian.org/debian unstable/main rapmap 0.15.0+dfsg-4 (tar) [625 kB] Get:3 http://deb.debian.org/debian unstable/main rapmap 0.15.0+dfsg-4 (diff) [15.0 kB] Fetched 642 kB in 0s (23.6 MB/s) Download complete and in download only mode ============================================================================= Building rapmap in unstable on arm64 on codethink03-arm64 now. Date: Sat Dec 27 19:07:45 GMT 2025 Date UTC: Sat Dec 27 19:07:45 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Sat Dec 27 07:07:45 -12 2025 I: pbuilder-time-stamp: 1766862465 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [rapmap_0.15.0+dfsg-4.dsc] I: copying [./rapmap_0.15.0+dfsg.orig.tar.xz] I: copying [./rapmap_0.15.0+dfsg-4.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Mar 25 17:52:53 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./rapmap_0.15.0+dfsg-4.dsc: no acceptable signature found dpkg-source: info: extracting rapmap in rapmap-0.15.0+dfsg dpkg-source: info: unpacking rapmap_0.15.0+dfsg.orig.tar.xz dpkg-source: info: unpacking rapmap_0.15.0+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-debian-libs.patch dpkg-source: info: applying use_shared_libs.patch dpkg-source: info: applying avoid_privacy_breach.patch dpkg-source: info: applying spelling dpkg-source: info: applying portable_pause dpkg-source: info: applying no_gomp_needed dpkg-source: info: applying simde I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2384066/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='5cbf64f5d5954b51af39b5179b009706' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='2384066' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q/pbuilderrc_csaL --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q/b1 --logfile b1/build.log rapmap_0.15.0+dfsg-4.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2384066/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: arm64 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), cmake, zlib1g-dev, libdivsufsort-dev, libcereal-dev, libjellyfish-2.0-dev, libjemalloc-dev, libsimde-dev, libsparsehash-dev, libspdlog-dev, libtclap-dev, pkg-config, python3-markdown, python3 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20084 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libdivsufsort-dev; however: Package libdivsufsort-dev is not installed. pbuilder-satisfydepends-dummy depends on libcereal-dev; however: Package libcereal-dev is not installed. pbuilder-satisfydepends-dummy depends on libjellyfish-2.0-dev; however: Package libjellyfish-2.0-dev is not installed. pbuilder-satisfydepends-dummy depends on libjemalloc-dev; however: Package libjemalloc-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev is not installed. pbuilder-satisfydepends-dummy depends on libsparsehash-dev; however: Package libsparsehash-dev is not installed. pbuilder-satisfydepends-dummy depends on libspdlog-dev; however: Package libspdlog-dev is not installed. pbuilder-satisfydepends-dummy depends on libtclap-dev; however: Package libtclap-dev is not installed. pbuilder-satisfydepends-dummy depends on pkg-config; however: Package pkg-config is not installed. pbuilder-satisfydepends-dummy depends on python3-markdown; however: Package python3-markdown is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} catch2{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libcatch2-dev{a} libcereal-dev{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libdivsufsort-dev{a} libdivsufsort3{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfmt-dev{a} libfmt10{a} libgssapi-krb5-2{a} libicu72{a} libjellyfish-2.0-2{a} libjellyfish-2.0-dev{a} libjemalloc-dev{a} libjemalloc2{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnsl2{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsimde-dev{a} libsparsehash-dev{a} libspdlog-dev{a} libspdlog1.12{a} libssh2-1t64{a} libtclap-dev{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-importlib-metadata{a} python3-markdown{a} python3-minimal{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} rapidjson-dev{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-pygments python3-yaml wget 0 packages upgraded, 94 newly installed, 0 to remove and 0 not upgraded. Need to get 48.5 MB of archives. After unpacking 204 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.12-minimal arm64 3.12.7-3 [808 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.12-minimal arm64 3.12.7-3 [1940 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.1-1+b1 [23.1 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 12 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3+b1 [78.7 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libnsl2 arm64 1.3.0-3+b3 [37.9 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-5 [159 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libpython3.12-stdlib arm64 3.12.7-3 [1902 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 python3.12 arm64 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.12.7-1 [9708 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-6 [62.3 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-6 [872 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.2-11 [91.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 libcatch2-dev arm64 3.7.1-0.4 [588 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 catch2 all 3.7.1-0.4 [5052 B] Get: 42 http://deb.debian.org/debian unstable/main arm64 cmake-data all 3.31.1-1 [2267 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-5+b1 [9239 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 libarchive13t64 arm64 3.7.4-1.1 [323 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3+b1 [175 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.11.0-1 [322 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libjsoncpp26 arm64 1.9.6-3 [72.9 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 librhash1 arm64 1.4.5-1 [129 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libuv1t64 arm64 1.48.0-7 [143 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 cmake arm64 3.31.1-1 [9873 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-8 [517 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 65 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.20 [915 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 rapidjson-dev all 1.1.0+dfsg2-7.3 [98.0 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libcereal-dev arm64 1.3.2+dfsg-5 [221 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 libdivsufsort3 arm64 2.0.1-6+b1 [39.9 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libdivsufsort-dev arm64 2.0.1-6+b1 [19.1 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libfmt10 arm64 10.1.1+ds1-4 [121 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libfmt-dev arm64 10.1.1+ds1-4 [177 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libjellyfish-2.0-2 arm64 2.3.1-3+b7 [61.8 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libjellyfish-2.0-dev arm64 2.3.1-3+b7 [136 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libjemalloc2 arm64 5.3.0-2+b2 [217 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libjemalloc-dev arm64 5.3.0-2+b2 [357 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libsimde-dev all 0.8.2-1 [465 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libsparsehash-dev all 2.0.3-2 [76.8 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libspdlog1.12 arm64 1:1.12.0+ds-2+b3 [95.3 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 libspdlog-dev arm64 1:1.12.0+ds-2+b3 [85.5 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 libtclap-dev arm64 1.2.5-1+b1 [3359 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 pkg-config arm64 1.8.1-4 [14.0 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 python3-importlib-metadata all 8.5.0-1 [21.0 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 python3-markdown all 3.7-1 [85.1 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Fetched 48.5 MB in 0s (185 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:arm64. (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 ... 20084 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_arm64.deb ... Unpacking libpython3.12-minimal:arm64 (3.12.7-3) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.6.4-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_arm64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:arm64 (3.12.7-3) ... Setting up libexpat1:arm64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... 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 ... 20404 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_arm64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:arm64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_arm64.deb ... Unpacking libnsl2:arm64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../14-libreadline8t64_8.2-5_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:arm64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_arm64.deb ... Unpacking libpython3.12-stdlib:arm64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_arm64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... 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 ... 21466 files and directories currently installed.) Preparing to unpack .../00-python3_3.12.7-1_arm64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../01-libproc2-0_2%3a4.0.4-6_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../02-procps_2%3a4.0.4-6_arm64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../03-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../05-libmagic1t64_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../06-file_1%3a5.45-3+b1_arm64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../07-gettext-base_0.22.5-2_arm64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../08-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../09-groff-base_1.23.0-5_arm64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../10-bsdextrautils_2.40.2-11_arm64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../11-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../12-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../14-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../15-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../16-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../17-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libcatch2-dev. Preparing to unpack .../18-libcatch2-dev_3.7.1-0.4_arm64.deb ... Unpacking libcatch2-dev (3.7.1-0.4) ... Selecting previously unselected package catch2. Preparing to unpack .../19-catch2_3.7.1-0.4_all.deb ... Unpacking catch2 (3.7.1-0.4) ... Selecting previously unselected package cmake-data. Preparing to unpack .../20-cmake-data_3.31.1-1_all.deb ... Unpacking cmake-data (3.31.1-1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../21-libicu72_72.1-5+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-5+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../22-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package libarchive13t64:arm64. Preparing to unpack .../23-libarchive13t64_3.7.4-1.1_arm64.deb ... Unpacking libarchive13t64:arm64 (3.7.4-1.1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../24-libbrotli1_1.1.0-2+b6_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b6) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../25-libsasl2-modules-db_2.1.28+dfsg1-8_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../26-libsasl2-2_2.1.28+dfsg1-8_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:arm64. Preparing to unpack .../27-libldap-2.5-0_2.5.18+dfsg-3+b1_arm64.deb ... Unpacking libldap-2.5-0:arm64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../28-libnghttp2-14_1.64.0-1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.64.0-1) ... Selecting previously unselected package libpsl5t64:arm64. Preparing to unpack .../29-libpsl5t64_0.21.2-1.1+b1_arm64.deb ... Unpacking libpsl5t64:arm64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../30-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:arm64. Preparing to unpack .../31-libssh2-1t64_1.11.1-1_arm64.deb ... Unpacking libssh2-1t64:arm64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:arm64. Preparing to unpack .../32-libcurl4t64_8.11.0-1_arm64.deb ... Unpacking libcurl4t64:arm64 (8.11.0-1) ... Selecting previously unselected package libjsoncpp26:arm64. Preparing to unpack .../33-libjsoncpp26_1.9.6-3_arm64.deb ... Unpacking libjsoncpp26:arm64 (1.9.6-3) ... Selecting previously unselected package librhash1:arm64. Preparing to unpack .../34-librhash1_1.4.5-1_arm64.deb ... Unpacking librhash1:arm64 (1.4.5-1) ... Selecting previously unselected package libuv1t64:arm64. Preparing to unpack .../35-libuv1t64_1.48.0-7_arm64.deb ... Unpacking libuv1t64:arm64 (1.48.0-7) ... Selecting previously unselected package cmake. Preparing to unpack .../36-cmake_3.31.1-1_arm64.deb ... Unpacking cmake (3.31.1-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../37-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../38-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../39-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../40-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../41-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../42-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../43-libelf1t64_0.192-4_arm64.deb ... Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../44-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../45-gettext_0.22.5-2_arm64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../46-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../47-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../48-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package rapidjson-dev. 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Setting up libnsl2:arm64 (1.3.0-3+b3) ... Setting up cmake (3.31.1-1) ... Setting up libpython3.12-stdlib:arm64 (3.12.7-3) ... Setting up python3.12 (3.12.7-3) ... Setting up debhelper (13.20) ... Setting up libpython3-stdlib:arm64 (3.12.7-1) ... Setting up python3 (3.12.7-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-markdown (3.7-1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-importlib-metadata (8.5.0-1) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/rapmap-0.15.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../rapmap_0.15.0+dfsg-4_source.changes dpkg-buildpackage: info: source package rapmap dpkg-buildpackage: info: source version 0.15.0+dfsg-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg' dh_clean README.html sample_data/sample_quasi_index/ sample_data/sample_quasi_index_ph/ sample_data/sample_quasi_map.sam sample_data/sample_quasi_map_ph.sam make[1]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg' dh_auto_configure -- -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true cd obj-aarch64-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/aarch64-linux-gnu -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true .. CMake Deprecation Warning at 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. CC: gcc CC version: -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done version: 0.6.0 -- DISABLING NATIVE ARCH. -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE Making Default build type -- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.3.1") -- Found Cereal: /usr/include (Required is at least version "1.2.2") -- Cereal found (include: /usr/include) -- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Found Jemalloc: /usr/lib/aarch64-linux-gnu/libjemalloc.so (found version "5.3.0-0-g54eaed1d8b56b1aa528be3bdd1877e59c56fa90c") Found Jemalloc library --- using this memory allocator CPACK_SOURCE_IGNORE_FILES = .git/ CMAKE_SYSTEM_PROCESSOR: aarch64 -- Configuring done (2.9s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED JELLYFISH_ROOT -- Build files have been written to: /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg' dh_auto_build cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/rapmap-0.15.0+dfsg -B/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/CMakeFiles /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/depend make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/depend make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/ksw2pp_basic.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/ksw2pp_sse2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/build make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/build make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 3%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o [ 7%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o [ 11%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o [ 15%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o [ 23%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o [ 19%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o [ 26%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg2.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extz.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o.d -o 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extf2_sse.c [ 30%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration 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-I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extz2_sse.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg2_sse.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/KSW2Aligner.cpp make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 38%] Built target ksw2pp_basic make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 38%] Built target ksw2pp_sse2 make -f src/CMakeFiles/ksw2pp.dir/build.make src/CMakeFiles/ksw2pp.dir/depend make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/ksw2pp.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp.dir/build.make src/CMakeFiles/ksw2pp.dir/build make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 42%] Linking CXX static library libksw2pp.a cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/ksw2pp.dir/cmake_clean_target.cmake cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ksw2pp.dir/link.txt --verbose=1 /usr/bin/ar qc libksw2pp.a CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o /usr/bin/ranlib libksw2pp.a make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 42%] Built target ksw2pp make -f src/CMakeFiles/rapmap.dir/build.make src/CMakeFiles/rapmap.dir/depend make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu 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-fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o -MF CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapFileSystem.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o -MF CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndex.cpp [ 76%] Building CXX object src/CMakeFiles/rapmap.dir/rank9b.cpp.o [ 80%] Building CXX object src/CMakeFiles/rapmap.dir/stringpiece.cc.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/HitManager.cpp.o -MF CMakeFiles/rapmap.dir/HitManager.cpp.o.d -o CMakeFiles/rapmap.dir/HitManager.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/HitManager.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/FastxParser.cpp.o -MF CMakeFiles/rapmap.dir/FastxParser.cpp.o.d -o CMakeFiles/rapmap.dir/FastxParser.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/rank9b.cpp.o -MF CMakeFiles/rapmap.dir/rank9b.cpp.o.d -o CMakeFiles/rapmap.dir/rank9b.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/rank9b.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/stringpiece.cc.o -MF CMakeFiles/rapmap.dir/stringpiece.cc.o.d -o CMakeFiles/rapmap.dir/stringpiece.cc.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/stringpiece.cc [ 84%] Building C object src/CMakeFiles/rapmap.dir/xxhash.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/rapmap.dir/xxhash.c.o -MF CMakeFiles/rapmap.dir/xxhash.c.o.d -o CMakeFiles/rapmap.dir/xxhash.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/xxhash.c [ 88%] Building C object src/CMakeFiles/rapmap.dir/bit_array.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/rapmap.dir/bit_array.c.o -MF CMakeFiles/rapmap.dir/bit_array.c.o.d -o CMakeFiles/rapmap.dir/bit_array.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/bit_array.c [ 92%] Building CXX object src/CMakeFiles/rapmap.dir/edlib.cpp.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/edlib.cpp.o -MF CMakeFiles/rapmap.dir/edlib.cpp.o.d -o CMakeFiles/rapmap.dir/edlib.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/edlib.cpp [ 96%] Building CXX object src/CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -MF CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o.d -o CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/metro/metrohash64.cpp In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/HitManager.hpp:25, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/HitManager.cpp:22: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/FastxParser.hpp:17, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp:1: /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h: In instantiation of 'void moodycamel::details::swap_relaxed(std::atomic<_ITp>&, std::atomic<_ITp>&) [with T = std::thread::id]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:3228:26: required from 'void moodycamel::ConcurrentQueue::ImplicitProducerKVP::swap(moodycamel::ConcurrentQueue::ImplicitProducerKVP&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 3228 | details::swap_relaxed(key, other.key); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:3221:4: required from 'moodycamel::ConcurrentQueue::ImplicitProducerKVP& moodycamel::ConcurrentQueue::ImplicitProducerKVP::operator=(moodycamel::ConcurrentQueue::ImplicitProducerKVP&&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 3221 | swap(other); | ^~~~ /usr/include/c++/14/bits/move.h:223:11: required from 'std::_Require >, std::is_move_constructible<_Tp>, std::is_move_assignable<_Tp> > std::swap(_Tp&, _Tp&) [with _Tp = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP; _Require<__not_<__is_tuple_like<_Tp> >, is_move_constructible<_Tp>, is_move_assignable<_Tp> > = void]' 223 | __a = _GLIBCXX_MOVE(__b); | ^ /usr/include/c++/14/bits/stl_algobase.h:185:11: required from 'void std::iter_swap(_ForwardIterator1, _ForwardIterator2) [with _ForwardIterator1 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*; _ForwardIterator2 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*]' 185 | swap(*__a, *__b); | ~~~~^~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algobase.h:215:16: required from '_ForwardIterator2 std::swap_ranges(_ForwardIterator1, _ForwardIterator1, _ForwardIterator2) [with _ForwardIterator1 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*; _ForwardIterator2 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*]' 215 | std::iter_swap(__first1, __first2); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/array:127:25: required from 'void std::array<_Tp, _Nm>::swap(std::array<_Tp, _Nm>&) [with _Tp = moodycamel::ConcurrentQueue, std::default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP; long unsigned int _Nm = 32]' 127 | { std::swap_ranges(begin(), end(), __other.begin()); } | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:3264:42: required from 'void moodycamel::ConcurrentQueue::swap_implicit_producer_hashes(moodycamel::ConcurrentQueue&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 3264 | initialImplicitProducerHashEntries.swap(other.initialImplicitProducerHashEntries); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:892:3: required from 'moodycamel::ConcurrentQueue& moodycamel::ConcurrentQueue::swap_internal(moodycamel::ConcurrentQueue&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 892 | swap_implicit_producer_hashes(other); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:863:10: required from 'moodycamel::ConcurrentQueue& moodycamel::ConcurrentQueue::operator=(moodycamel::ConcurrentQueue&&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 863 | return swap_internal(other); | ^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp:46:14: required from 'fastx_parser::FastxParser::FastxParser(std::vector >, std::vector >, uint32_t, uint32_t, uint32_t) [with T = fastx_parser::ReadSeq; uint32_t = unsigned int]' 46 | readQueue_ = moodycamel::ConcurrentQueue>>( | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 | 4 * numConsumers, numParsers, 0); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp:405:16: required from here 405 | template class FastxParser; | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:446:19: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 446 | T temp = std::move(left.load(std::memory_order_relaxed)); | ^~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:446:19: note: remove 'std::move' call /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:447:27: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 447 | left.store(std::move(right.load(std::memory_order_relaxed)), std::memory_order_relaxed); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:447:27: note: remove 'std::move' call In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/IndexHeader.hpp:25, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMap.cpp:30: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapUtils.cpp:26: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:5, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndex.cpp:23: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/HitManager.hpp:25, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:50: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/zstr/zstr.hpp:16, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:62: /build/reproducible-path/rapmap-0.15.0+dfsg/include/zstr/strict_fstream.hpp: In static member function 'static void strict_fstream::detail::static_method_holder::check_peek(std::istream*, const std::string&, std::ios_base::openmode)': /build/reproducible-path/rapmap-0.15.0+dfsg/include/zstr/strict_fstream.hpp:128:39: warning: catching polymorphic type 'class std::ios_base::failure' by value [-Wcatch-value=] 128 | catch (std::ios_base::failure e) {} | ^ In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:50: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:29: /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair > >; Alloc = spp::libc_allocator > > >; value_type = std::pair > >; reference = std::pair > >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; pointer = std::pair > >*; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair > >; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map > >::DefaultValue; KT = long unsigned int&; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; value_type = std::pair > >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = std::vector >; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; mapped_type = std::vector >]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:652:33: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 652 | duplicateNames[dupInfo.txId].push_back(processedName); | ~~~~~~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup > >, spp::libc_allocator > > > >::value_type' {aka 'std::pair > >'} to 'spp::sparsegroup > >, spp::libc_allocator > > > >::mutable_reference' {aka 'std::pair > >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = std::vector >; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = std::vector >]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair > >; Alloc = spp::libc_allocator > > >; mutable_value_type = std::pair > >; reference = std::pair > >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1407:22: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_not_ok_type) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; allocator_type = spp::libc_allocator > > >; size_type = unsigned char; realloc_not_ok_type = spp::integral_constant]' 1407 | _init_val((mutable_pointer)&_group[num_items], val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; pointer = std::pair > >*; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair > >; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map > >::DefaultValue; KT = long unsigned int&; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; value_type = std::pair > >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = std::vector >; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; mapped_type = std::vector >]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:652:33: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 652 | duplicateNames[dupInfo.txId].push_back(processedName); | ~~~~~~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup > >, spp::libc_allocator > > > >::value_type' {aka 'std::pair > >'} to 'spp::sparsegroup > >, spp::libc_allocator > > > >::mutable_reference' {aka 'std::pair > >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = std::vector >; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = std::vector >]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:842:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 842 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:863:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 863 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = long int; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long int; Key = long int; T = long int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = long int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:839:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 839 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 840 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; mutable_value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1407:22: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_not_ok_type) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char; realloc_not_ok_type = spp::integral_constant]' 1407 | _init_val((mutable_pointer)&_group[num_items], val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:842:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 842 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = int; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = int; Key = int; T = int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:860:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 860 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 861 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; mutable_value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1407:22: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_not_ok_type) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char; realloc_not_ok_type = spp::integral_constant]' 1407 | _init_val((mutable_pointer)&_group[num_items], val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:863:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 863 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = long int; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long int; Key = long int; T = long int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = long int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:839:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 839 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 840 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = int; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = int; Key = int; T = int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:860:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 860 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 861 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:29: /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator > >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = long int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1217:29: required from here 1217 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1232:31: required from here 1232 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator > >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = long int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1217:29: required from here 1217 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1232:31: required from here 1232 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/sha2.hpp:9, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/digestpp.hpp:6, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:73: In member function 'void digestpp::detail::sha2_provider::transform(const unsigned char*, size_t) [with T = long unsigned int; long unsigned int O = 0]', inlined from 'digestpp::detail::sha2_provider::update(const unsigned char*, size_t)::' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/sha2_provider.hpp:169:61, inlined from 'void digestpp::detail::absorb_bytes(const unsigned char*, size_t, size_t, size_t, unsigned char*, size_t&, T&, TF) [with T = long unsigned int; TF = sha2_provider::update(const unsigned char*, size_t)::]' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/../../detail/absorb_data.hpp:32:12, inlined from 'void digestpp::detail::sha2_provider::update(const unsigned char*, size_t) [with T = long unsigned int; long unsigned int O = 0]' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/sha2_provider.hpp:168:23, inlined from 'digestpp::hasher& digestpp::hasher::absorb(IT, IT) [with IT = __gnu_cxx::__normal_iterator >; HashProvider = digestpp::detail::sha2_provider; Mixin = digestpp::mixin::null_mixin]' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/hasher.hpp:170:19, inlined from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser]' at /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:581:30: /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/sha2_provider.hpp:208:48: warning: array subscript 'const long unsigned int[0]' is partly outside array bounds of 'unsigned char [1]' [-Warray-bounds=] 208 | M[i] = byteswap(reinterpret_cast(data)[blk * 16 + i]); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/digestpp.hpp:5: /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/hasher.hpp: In function 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/hasher.hpp:169:39: note: object 'byte' of size 1 169 | unsigned char byte = *begin++; | ^~~~ At global scope: cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics At global scope: cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics [100%] Linking CXX executable rapmap cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/rapmap.dir/link.txt --verbose=1 /usr/bin/ld: libksw2pp.a(KSW2Aligner.cpp.o): in function `ksw2pp::KSW2Aligner::operator()(unsigned char const*, int, unsigned char const*, int, ksw_extz_t*, ksw2pp::EnumToType<(ksw2pp::KSW2AlignmentType)2>)': ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:362:(.text+0x4dc): undefined reference to `ksw_extz2_sse2' /usr/bin/ld: ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:358:(.text+0x510): undefined reference to `ksw_extz2_sse41' /usr/bin/ld: libksw2pp.a(KSW2Aligner.cpp.o): in function `ksw2pp::KSW2Aligner::operator()(char const*, int, char const*, int, ksw_extz_t*, ksw2pp::EnumToType<(ksw2pp::KSW2AlignmentType)2>)': ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:227:(.text+0x1088): undefined reference to `ksw_extz2_sse2' /usr/bin/ld: ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:223:(.text+0x10cc): undefined reference to `ksw_extz2_sse41' collect2: error: ld returned 1 exit status /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rapmap.dir/link.d CMakeFiles/rapmap.dir/RapMap.cpp.o CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o CMakeFiles/rapmap.dir/RapMapUtils.cpp.o CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o CMakeFiles/rapmap.dir/HitManager.cpp.o CMakeFiles/rapmap.dir/FastxParser.cpp.o CMakeFiles/rapmap.dir/rank9b.cpp.o CMakeFiles/rapmap.dir/stringpiece.cc.o CMakeFiles/rapmap.dir/xxhash.c.o CMakeFiles/rapmap.dir/bit_array.c.o CMakeFiles/rapmap.dir/edlib.cpp.o CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -o rapmap -L/build/reproducible-path/rapmap-0.15.0+dfsg/lib -L/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/lib -Wl,-rpath,"\$ORIGIN/../lib:\$ORIGIN/../../lib:\$ORIGIN/:\$ORIGIN/../../external/install/lib" /usr/lib/aarch64-linux-gnu/libz.so -ldivsufsort -ldivsufsort64 -lm -lz /usr/lib/aarch64-linux-gnu/libjemalloc.so -lrt libksw2pp.a -ldl make[4]: *** [src/CMakeFiles/rapmap.dir/build.make:315: src/rapmap] Error 1 make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make[3]: *** [CMakeFiles/Makefile2:150: src/CMakeFiles/rapmap.dir/all] Error 2 make[3]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make[2]: *** [Makefile:169: all] Error 2 make[2]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' dh_auto_build: error: cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 returned exit code 2 make[1]: *** [debian/rules:23: override_dh_auto_build] Error 25 make[1]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg' make: *** [debian/rules:17: binary] Error 2 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2384066 and its subdirectories Starting cleanup. All cleanup done. Sat Dec 27 19:09:03 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-4anZeuxL, removing. /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 12:46 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 24 12:44 b2 -rw-r--r-- 1 jenkins jenkins 2322 Mar 25 2024 rapmap_0.15.0+dfsg-4.dsc -rw------- 1 jenkins jenkins 3457 Nov 24 12:44 rbuildlog.aYPz0ab /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q/b1: total 220 -rw-r--r-- 1 jenkins jenkins 223496 Nov 24 12:46 build.log /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q/b2: total 0 Sun Nov 24 12:46:05 UTC 2024 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sat Dec 27 07:07:45 -12 2025 I: pbuilder-time-stamp: 1766862465 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [rapmap_0.15.0+dfsg-4.dsc] I: copying [./rapmap_0.15.0+dfsg.orig.tar.xz] I: copying [./rapmap_0.15.0+dfsg-4.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Mar 25 17:52:53 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./rapmap_0.15.0+dfsg-4.dsc: no acceptable signature found dpkg-source: info: extracting rapmap in rapmap-0.15.0+dfsg dpkg-source: info: unpacking rapmap_0.15.0+dfsg.orig.tar.xz dpkg-source: info: unpacking rapmap_0.15.0+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-debian-libs.patch dpkg-source: info: applying use_shared_libs.patch dpkg-source: info: applying avoid_privacy_breach.patch dpkg-source: info: applying spelling dpkg-source: info: applying portable_pause dpkg-source: info: applying no_gomp_needed dpkg-source: info: applying simde I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2384066/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='5cbf64f5d5954b51af39b5179b009706' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='2384066' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q/pbuilderrc_csaL --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.iRZurX3Q/b1 --logfile b1/build.log rapmap_0.15.0+dfsg-4.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-27-cloud-arm64 #1 SMP Debian 6.1.115-1 (2024-11-01) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2384066/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: arm64 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), cmake, zlib1g-dev, libdivsufsort-dev, libcereal-dev, libjellyfish-2.0-dev, libjemalloc-dev, libsimde-dev, libsparsehash-dev, libspdlog-dev, libtclap-dev, pkg-config, python3-markdown, python3 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20084 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 cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libdivsufsort-dev; however: Package libdivsufsort-dev is not installed. pbuilder-satisfydepends-dummy depends on libcereal-dev; however: Package libcereal-dev is not installed. pbuilder-satisfydepends-dummy depends on libjellyfish-2.0-dev; however: Package libjellyfish-2.0-dev is not installed. pbuilder-satisfydepends-dummy depends on libjemalloc-dev; however: Package libjemalloc-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev is not installed. pbuilder-satisfydepends-dummy depends on libsparsehash-dev; however: Package libsparsehash-dev is not installed. pbuilder-satisfydepends-dummy depends on libspdlog-dev; however: Package libspdlog-dev is not installed. pbuilder-satisfydepends-dummy depends on libtclap-dev; however: Package libtclap-dev is not installed. pbuilder-satisfydepends-dummy depends on pkg-config; however: Package pkg-config is not installed. pbuilder-satisfydepends-dummy depends on python3-markdown; however: Package python3-markdown is not installed. pbuilder-satisfydepends-dummy depends on python3; however: Package python3 is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} catch2{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbrotli1{a} libcatch2-dev{a} libcereal-dev{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libdivsufsort-dev{a} libdivsufsort3{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfmt-dev{a} libfmt10{a} libgssapi-krb5-2{a} libicu72{a} libjellyfish-2.0-2{a} libjellyfish-2.0-dev{a} libjemalloc-dev{a} libjemalloc2{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnsl2{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsimde-dev{a} libsparsehash-dev{a} libspdlog-dev{a} libspdlog1.12{a} libssh2-1t64{a} libtclap-dev{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-importlib-metadata{a} python3-markdown{a} python3-minimal{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} rapidjson-dev{a} readline-common{a} sensible-utils{a} tzdata{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-pygments python3-yaml wget 0 packages upgraded, 94 newly installed, 0 to remove and 0 not upgraded. Need to get 48.5 MB of archives. After unpacking 204 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.12-minimal arm64 3.12.7-3 [808 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.12-minimal arm64 3.12.7-3 [1940 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2024b-3 [255 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.1-1+b1 [23.1 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 12 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3+b1 [78.7 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libnsl2 arm64 1.3.0-3+b3 [37.9 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-5 [159 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libpython3.12-stdlib arm64 3.12.7-3 [1902 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 python3.12 arm64 3.12.7-3 [671 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.12.7-1 [9708 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-6 [62.3 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-6 [872 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.2-11 [91.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 36 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 libcatch2-dev arm64 3.7.1-0.4 [588 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 catch2 all 3.7.1-0.4 [5052 B] Get: 42 http://deb.debian.org/debian unstable/main arm64 cmake-data all 3.31.1-1 [2267 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-5+b1 [9239 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 libarchive13t64 arm64 3.7.4-1.1 [323 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3+b1 [175 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.11.0-1 [322 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libjsoncpp26 arm64 1.9.6-3 [72.9 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 librhash1 arm64 1.4.5-1 [129 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libuv1t64 arm64 1.48.0-7 [143 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 cmake arm64 3.31.1-1 [9873 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-8 [517 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 65 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.20 [915 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 rapidjson-dev all 1.1.0+dfsg2-7.3 [98.0 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libcereal-dev arm64 1.3.2+dfsg-5 [221 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 libdivsufsort3 arm64 2.0.1-6+b1 [39.9 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libdivsufsort-dev arm64 2.0.1-6+b1 [19.1 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libfmt10 arm64 10.1.1+ds1-4 [121 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libfmt-dev arm64 10.1.1+ds1-4 [177 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libjellyfish-2.0-2 arm64 2.3.1-3+b7 [61.8 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libjellyfish-2.0-dev arm64 2.3.1-3+b7 [136 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libjemalloc2 arm64 5.3.0-2+b2 [217 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libjemalloc-dev arm64 5.3.0-2+b2 [357 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libsimde-dev all 0.8.2-1 [465 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libsparsehash-dev all 2.0.3-2 [76.8 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libspdlog1.12 arm64 1:1.12.0+ds-2+b3 [95.3 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 libspdlog-dev arm64 1:1.12.0+ds-2+b3 [85.5 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 libtclap-dev arm64 1.2.5-1+b1 [3359 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 pkg-config arm64 1.8.1-4 [14.0 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 python3-importlib-metadata all 8.5.0-1 [21.0 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 python3-markdown all 3.7-1 [85.1 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Fetched 48.5 MB in 0s (185 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:arm64. (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 ... 20084 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.7-3_arm64.deb ... Unpacking libpython3.12-minimal:arm64 (3.12.7-3) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.6.4-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.7-3_arm64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:arm64 (3.12.7-3) ... Setting up libexpat1:arm64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... 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 ... 20404 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_arm64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:arm64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_arm64.deb ... Unpacking libnsl2:arm64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../14-libreadline8t64_8.2-5_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:arm64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_arm64.deb ... Unpacking libpython3.12-stdlib:arm64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_arm64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... 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 ... 21466 files and directories currently installed.) Preparing to unpack .../00-python3_3.12.7-1_arm64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../01-libproc2-0_2%3a4.0.4-6_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../02-procps_2%3a4.0.4-6_arm64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../03-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../05-libmagic1t64_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../06-file_1%3a5.45-3+b1_arm64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../07-gettext-base_0.22.5-2_arm64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../08-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../09-groff-base_1.23.0-5_arm64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../10-bsdextrautils_2.40.2-11_arm64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../11-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../12-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.19-4_arm64.deb ... 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Setting up libnsl2:arm64 (1.3.0-3+b3) ... Setting up cmake (3.31.1-1) ... Setting up libpython3.12-stdlib:arm64 (3.12.7-3) ... Setting up python3.12 (3.12.7-3) ... Setting up debhelper (13.20) ... Setting up libpython3-stdlib:arm64 (3.12.7-1) ... Setting up python3 (3.12.7-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-markdown (3.7-1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-importlib-metadata (8.5.0-1) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/rapmap-0.15.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../rapmap_0.15.0+dfsg-4_source.changes dpkg-buildpackage: info: source package rapmap dpkg-buildpackage: info: source version 0.15.0+dfsg-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg' dh_clean README.html sample_data/sample_quasi_index/ sample_data/sample_quasi_index_ph/ sample_data/sample_quasi_map.sam sample_data/sample_quasi_map_ph.sam make[1]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg' dh_auto_configure -- -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true cd obj-aarch64-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/aarch64-linux-gnu -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true .. CMake Deprecation Warning at 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. CC: gcc CC version: -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done version: 0.6.0 -- DISABLING NATIVE ARCH. -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE Making Default build type -- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.3.1") -- Found Cereal: /usr/include (Required is at least version "1.2.2") -- Cereal found (include: /usr/include) -- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Found Jemalloc: /usr/lib/aarch64-linux-gnu/libjemalloc.so (found version "5.3.0-0-g54eaed1d8b56b1aa528be3bdd1877e59c56fa90c") Found Jemalloc library --- using this memory allocator CPACK_SOURCE_IGNORE_FILES = .git/ CMAKE_SYSTEM_PROCESSOR: aarch64 -- Configuring done (2.9s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED JELLYFISH_ROOT -- Build files have been written to: /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg' dh_auto_build cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/rapmap-0.15.0+dfsg -B/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/CMakeFiles /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/depend make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/depend make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/ksw2pp_basic.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/ksw2pp_sse2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp_basic.dir/build.make src/CMakeFiles/ksw2pp_basic.dir/build make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp_sse2.dir/build.make src/CMakeFiles/ksw2pp_sse2.dir/build make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 3%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o [ 7%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o [ 11%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o [ 15%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o [ 23%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o [ 19%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o [ 26%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg2.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extz.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/kalloc.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extd.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extf2_sse.c [ 30%] Building C object src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extd2_sse.c [ 34%] Building C object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o [ 38%] Building CXX object src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o -MF CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o.d -o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_extz2_sse.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/ksw2_gg2_sse.c cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -MF CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o.d -o CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/ksw2pp/KSW2Aligner.cpp make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 38%] Built target ksw2pp_basic make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 38%] Built target ksw2pp_sse2 make -f src/CMakeFiles/ksw2pp.dir/build.make src/CMakeFiles/ksw2pp.dir/depend make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/ksw2pp.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/ksw2pp.dir/build.make src/CMakeFiles/ksw2pp.dir/build make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 42%] Linking CXX static library libksw2pp.a cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/ksw2pp.dir/cmake_clean_target.cmake cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ksw2pp.dir/link.txt --verbose=1 /usr/bin/ar qc libksw2pp.a CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extd2_sse.c.o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extf2_sse.c.o CMakeFiles/ksw2pp_sse2.dir/ksw2pp/ksw2_extz2_sse.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/kalloc.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extd.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_extz.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/ksw2_gg2_sse.c.o CMakeFiles/ksw2pp_basic.dir/ksw2pp/KSW2Aligner.cpp.o /usr/bin/ranlib libksw2pp.a make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 42%] Built target ksw2pp make -f src/CMakeFiles/rapmap.dir/build.make src/CMakeFiles/rapmap.dir/depend make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/rapmap-0.15.0+dfsg /build/reproducible-path/rapmap-0.15.0+dfsg/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/rapmap.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/rapmap.dir/build.make src/CMakeFiles/rapmap.dir/build make[4]: Entering directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' [ 57%] Building CXX object src/CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o [ 57%] Building CXX object src/CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o [ 57%] Building CXX object src/CMakeFiles/rapmap.dir/RapMap.cpp.o [ 57%] Building CXX object src/CMakeFiles/rapmap.dir/RapMapUtils.cpp.o [ 69%] Building CXX object src/CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o [ 69%] Building CXX object src/CMakeFiles/rapmap.dir/HitManager.cpp.o [ 73%] Building CXX object src/CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o [ 69%] Building CXX object src/CMakeFiles/rapmap.dir/FastxParser.cpp.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapUtils.cpp.o -MF CMakeFiles/rapmap.dir/RapMapUtils.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapUtils.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapUtils.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMap.cpp.o -MF CMakeFiles/rapmap.dir/RapMap.cpp.o.d -o CMakeFiles/rapmap.dir/RapMap.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMap.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o -MF CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o -MF CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o -MF CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapFileSystem.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o -MF CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o.d -o CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndex.cpp [ 76%] Building CXX object src/CMakeFiles/rapmap.dir/rank9b.cpp.o [ 80%] Building CXX object src/CMakeFiles/rapmap.dir/stringpiece.cc.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/HitManager.cpp.o -MF CMakeFiles/rapmap.dir/HitManager.cpp.o.d -o CMakeFiles/rapmap.dir/HitManager.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/HitManager.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/FastxParser.cpp.o -MF CMakeFiles/rapmap.dir/FastxParser.cpp.o.d -o CMakeFiles/rapmap.dir/FastxParser.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/rank9b.cpp.o -MF CMakeFiles/rapmap.dir/rank9b.cpp.o.d -o CMakeFiles/rapmap.dir/rank9b.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/rank9b.cpp cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/stringpiece.cc.o -MF CMakeFiles/rapmap.dir/stringpiece.cc.o.d -o CMakeFiles/rapmap.dir/stringpiece.cc.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/stringpiece.cc [ 84%] Building C object src/CMakeFiles/rapmap.dir/xxhash.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/rapmap.dir/xxhash.c.o -MF CMakeFiles/rapmap.dir/xxhash.c.o.d -o CMakeFiles/rapmap.dir/xxhash.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/xxhash.c [ 88%] Building C object src/CMakeFiles/rapmap.dir/bit_array.c.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cc -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -MD -MT src/CMakeFiles/rapmap.dir/bit_array.c.o -MF CMakeFiles/rapmap.dir/bit_array.c.o.d -o CMakeFiles/rapmap.dir/bit_array.c.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/bit_array.c [ 92%] Building CXX object src/CMakeFiles/rapmap.dir/edlib.cpp.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/edlib.cpp.o -MF CMakeFiles/rapmap.dir/edlib.cpp.o.d -o CMakeFiles/rapmap.dir/edlib.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/edlib.cpp [ 96%] Building CXX object src/CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/rapmap-0.15.0+dfsg/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/digestpp -I/build/reproducible-path/rapmap-0.15.0+dfsg/external -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/cereal/include -I/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/include -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -std=c++14 -MD -MT src/CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -MF CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o.d -o CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -c /build/reproducible-path/rapmap-0.15.0+dfsg/src/metro/metrohash64.cpp In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/HitManager.hpp:25, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/HitManager.cpp:22: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/FastxParser.hpp:17, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp:1: /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h: In instantiation of 'void moodycamel::details::swap_relaxed(std::atomic<_ITp>&, std::atomic<_ITp>&) [with T = std::thread::id]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:3228:26: required from 'void moodycamel::ConcurrentQueue::ImplicitProducerKVP::swap(moodycamel::ConcurrentQueue::ImplicitProducerKVP&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 3228 | details::swap_relaxed(key, other.key); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:3221:4: required from 'moodycamel::ConcurrentQueue::ImplicitProducerKVP& moodycamel::ConcurrentQueue::ImplicitProducerKVP::operator=(moodycamel::ConcurrentQueue::ImplicitProducerKVP&&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 3221 | swap(other); | ^~~~ /usr/include/c++/14/bits/move.h:223:11: required from 'std::_Require >, std::is_move_constructible<_Tp>, std::is_move_assignable<_Tp> > std::swap(_Tp&, _Tp&) [with _Tp = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP; _Require<__not_<__is_tuple_like<_Tp> >, is_move_constructible<_Tp>, is_move_assignable<_Tp> > = void]' 223 | __a = _GLIBCXX_MOVE(__b); | ^ /usr/include/c++/14/bits/stl_algobase.h:185:11: required from 'void std::iter_swap(_ForwardIterator1, _ForwardIterator2) [with _ForwardIterator1 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*; _ForwardIterator2 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*]' 185 | swap(*__a, *__b); | ~~~~^~~~~~~~~~~~ /usr/include/c++/14/bits/stl_algobase.h:215:16: required from '_ForwardIterator2 std::swap_ranges(_ForwardIterator1, _ForwardIterator1, _ForwardIterator2) [with _ForwardIterator1 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*; _ForwardIterator2 = moodycamel::ConcurrentQueue, default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP*]' 215 | std::iter_swap(__first1, __first2); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/array:127:25: required from 'void std::array<_Tp, _Nm>::swap(std::array<_Tp, _Nm>&) [with _Tp = moodycamel::ConcurrentQueue, std::default_delete > >, moodycamel::ConcurrentQueueDefaultTraits>::ImplicitProducerKVP; long unsigned int _Nm = 32]' 127 | { std::swap_ranges(begin(), end(), __other.begin()); } | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:3264:42: required from 'void moodycamel::ConcurrentQueue::swap_implicit_producer_hashes(moodycamel::ConcurrentQueue&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 3264 | initialImplicitProducerHashEntries.swap(other.initialImplicitProducerHashEntries); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:892:3: required from 'moodycamel::ConcurrentQueue& moodycamel::ConcurrentQueue::swap_internal(moodycamel::ConcurrentQueue&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 892 | swap_implicit_producer_hashes(other); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:863:10: required from 'moodycamel::ConcurrentQueue& moodycamel::ConcurrentQueue::operator=(moodycamel::ConcurrentQueue&&) [with T = std::unique_ptr, std::default_delete > >; Traits = moodycamel::ConcurrentQueueDefaultTraits]' 863 | return swap_internal(other); | ^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp:46:14: required from 'fastx_parser::FastxParser::FastxParser(std::vector >, std::vector >, uint32_t, uint32_t, uint32_t) [with T = fastx_parser::ReadSeq; uint32_t = unsigned int]' 46 | readQueue_ = moodycamel::ConcurrentQueue>>( | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 | 4 * numConsumers, numParsers, 0); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/FastxParser.cpp:405:16: required from here 405 | template class FastxParser; | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:446:19: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 446 | T temp = std::move(left.load(std::memory_order_relaxed)); | ^~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:446:19: note: remove 'std::move' call /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:447:27: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 447 | left.store(std::move(right.load(std::memory_order_relaxed)), std::memory_order_relaxed); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/concurrentqueue.h:447:27: note: remove 'std::move' call In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/IndexHeader.hpp:25, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMap.cpp:30: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapUtils.cpp:26: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:5, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndex.cpp:23: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/HitManager.hpp:25, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:50: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/zstr/zstr.hpp:16, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:62: /build/reproducible-path/rapmap-0.15.0+dfsg/include/zstr/strict_fstream.hpp: In static member function 'static void strict_fstream::detail::static_method_holder::check_peek(std::istream*, const std::string&, std::ios_base::openmode)': /build/reproducible-path/rapmap-0.15.0+dfsg/include/zstr/strict_fstream.hpp:128:39: warning: catching polymorphic type 'class std::ios_base::failure' by value [-Wcatch-value=] 128 | catch (std::ios_base::failure e) {} | ^ In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/spdlog_impl.h:12, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/spdlog.h:192, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:33, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:50: /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 197 | registry_t() {} | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:197:22: note: remove the '< >' /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor] 198 | registry_t(const registry_t&) = delete; | ^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/spdlog/details/../details/registry.h:198:22: note: remove the '< >' In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:29: /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair > >; Alloc = spp::libc_allocator > > >; value_type = std::pair > >; reference = std::pair > >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; pointer = std::pair > >*; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair > >; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map > >::DefaultValue; KT = long unsigned int&; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; value_type = std::pair > >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = std::vector >; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; mapped_type = std::vector >]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:652:33: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 652 | duplicateNames[dupInfo.txId].push_back(processedName); | ~~~~~~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup > >, spp::libc_allocator > > > >::value_type' {aka 'std::pair > >'} to 'spp::sparsegroup > >, spp::libc_allocator > > > >::mutable_reference' {aka 'std::pair > >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = std::vector >; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = std::vector >]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair > >; Alloc = spp::libc_allocator > > >; mutable_value_type = std::pair > >; reference = std::pair > >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1407:22: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_not_ok_type) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; allocator_type = spp::libc_allocator > > >; size_type = unsigned char; realloc_not_ok_type = spp::integral_constant]' 1407 | _init_val((mutable_pointer)&_group[num_items], val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; pointer = std::pair > >*; allocator_type = spp::libc_allocator > > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair > >; T = std::pair > >; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair > >; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; reference = std::pair > >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map > >::DefaultValue; KT = long unsigned int&; Value = std::pair > >; Key = long unsigned int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map > >::SelectKey; SetKey = spp::sparse_hash_map > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; value_type = std::pair > >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = std::vector >; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator > > >; mapped_type = std::vector >]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:652:33: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 652 | duplicateNames[dupInfo.txId].push_back(processedName); | ~~~~~~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup > >, spp::libc_allocator > > > >::value_type' {aka 'std::pair > >'} to 'spp::sparsegroup > >, spp::libc_allocator > > > >::mutable_reference' {aka 'std::pair > >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = std::vector >; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = std::vector >]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:842:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 842 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:863:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 863 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = long int; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long int; Key = long int; T = long int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = long int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:839:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 839 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 840 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; mutable_value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1407:22: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_not_ok_type) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char; realloc_not_ok_type = spp::integral_constant]' 1407 | _init_val((mutable_pointer)&_group[num_items], val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:842:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 842 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = int; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = int; Key = int; T = int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:860:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 860 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 861 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair >; Alloc = spp::libc_allocator > >; mutable_value_type = std::pair >; reference = std::pair >&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1407:22: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_not_ok_type) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char; realloc_not_ok_type = spp::integral_constant]' 1407 | _init_val((mutable_pointer)&_group[num_items], val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; pointer = std::pair >*; allocator_type = spp::libc_allocator > >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair >; T = std::pair >; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair >; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; reference = std::pair >&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::DefaultValue; KT = long unsigned int&; Value = std::pair >; Key = long unsigned int; HashFcn = rapmap::utils::KmerKeyHasher; ExtractKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SelectKey; SetKey = spp::sparse_hash_map, rapmap::utils::KmerKeyHasher, std::equal_to, spp::libc_allocator > > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; value_type = std::pair >]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long unsigned int&; Key = long unsigned int; T = rapmap::utils::SAInterval; HashFcn = rapmap::utils::KmerKeyHasher; EqualKey = std::equal_to; Alloc = spp::libc_allocator > >; mapped_type = rapmap::utils::SAInterval]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:319:18: required from 'bool buildHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 319 | khash[bits] = {start, stop}; | ~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:863:34: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 863 | success = buildHash(outputDir, concatText, tlen, k, SA); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup >, spp::libc_allocator > > >::value_type' {aka 'std::pair >'} to 'spp::sparsegroup >, spp::libc_allocator > > >::mutable_reference' {aka 'std::pair >&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long unsigned int; _U2 = rapmap::utils::SAInterval; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long unsigned int; _T2 = rapmap::utils::SAInterval]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = long int; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = long int; Key = long int; T = long int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = long int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = long int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:839:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 839 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 840 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::find_or_insert(KT&&) [with DefaultValue = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::DefaultValue; KT = int; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; value_type = std::pair]' 3288 | return _insert_at(def, erased ? erased_pos : bucknum, erased); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3810:57: required from 'spp::sparse_hash_map::mapped_type& spp::sparse_hash_map::operator[](KT&&) [with KT = int; Key = int; T = int; HashFcn = spp::spp_hash; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; mapped_type = int]' 3810 | return rep.template find_or_insert(std::forward(key)).second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:106:22: required from 'void FrugalBooMap::add(KeyT&&, ValueT&&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval]' 106 | overflow_[v.begin()] = l; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:162:24: required from 'bool buildPerfectHash(const std::string&, nonstd::sv_lite::string_view, size_t, uint32_t, std::vector<_RealType>&, uint32_t) [with IndexT = int; std::string = std::__cxx11::basic_string; nonstd::sv_lite::string_view = nonstd::sv_lite::basic_string_view; size_t = long unsigned int; uint32_t = unsigned int]' 162 | intervals.add(std::move(bits), {start, stop}); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:860:41: required from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]' 860 | success = buildPerfectHash(outputDir, concatText, tlen, k, SA, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 861 | numHashThreads); | ~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:1032:21: required from here 1032 | indexTranscriptsSA(transcriptParserPtr.get(), indexDir, decoyNames, noClipPolyA, | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 | usePerfectHash, numPerfectHashThreads, keepDuplicates, sepStr, iomutex, jointLog); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/RapMapUtils.hpp:29: /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator > >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = long int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1217:29: required from here 1217 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_set_val(value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1440:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1440 | _set_val(&_group[offset], val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1232:31: required from here 1232 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1355:41: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1355 | *(mutable_pointer)p = std::move((mutable_reference)val); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = long int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator > >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = long int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1217:29: required from here 1217 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const long int; _U2 = long int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = long int; _T2 = long int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h: In instantiation of 'void spp::sparsegroup::_init_val(mutable_value_type*, reference) [with T = std::pair; Alloc = spp::libc_allocator >; mutable_value_type = std::pair; reference = std::pair&]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1390:18: required from 'void spp::sparsegroup::_set_aux(allocator_type&, size_type, Val&, realloc_ok_type) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char; realloc_ok_type = spp::integral_constant]' 1390 | _init_val((mutable_pointer)(_group + offset), val); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1435:21: required from 'void spp::sparsegroup::_set(allocator_type&, size_type, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1435 | _set_aux(alloc, offset, val, check_alloc_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1453:13: required from 'spp::sparsegroup::value_type* spp::sparsegroup::set(allocator_type&, size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; pointer = std::pair*; allocator_type = spp::libc_allocator >; size_type = unsigned char]' 1453 | _set(alloc, i, offset, val); // may change _group pointer | ~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:2241:28: required from 'spp::sparsetable::value_type& spp::sparsetable::set(size_type, Val&) [with Val = std::pair; T = std::pair; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 2241 | pointer p(group.set(_alloc, pos_in_group(i), val)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3171:25: required from 'spp::sparse_hashtable::value_type& spp::sparse_hashtable::_insert_at(T&, size_type, bool) [with T = std::pair; Value = std::pair; Key = int; HashFcn = spp::spp_hash; ExtractKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SelectKey; SetKey = spp::sparse_hash_map, std::equal_to, spp::libc_allocator > >::SetKey; EqualKey = std::equal_to; Alloc = spp::libc_allocator >; reference = std::pair&; size_type = long unsigned int]' 3171 | return table.set(pos, obj); | ~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:3288:38: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /build/reproducible-path/rapmap-0.15.0+dfsg/include/FrugalBooMap.hpp:162:30: required from 'FrugalBooMap::IteratorT FrugalBooMap::find(const KeyT&) [with KeyT = long unsigned int; ValueT = rapmap::utils::SAInterval; IteratorT = KVProxy<__gnu_cxx::__normal_iterator >, rapmap::utils::SAInterval >]' 162 | l = overflow_[ind]; | ~~~~~~~~~^ /build/reproducible-path/rapmap-0.15.0+dfsg/include/SACollector.hpp:196:25: required from 'bool SACollector::operator()(std::string&, SASearcher&, rapmap::hit_manager::HitCollectorInfo >&) [with RapMapIndexT = RapMapSAIndex > >; std::string = std::__cxx11::basic_string; typename RapMapIndexT::IndexType = int]' 196 | merIt = khash.find(mer.word(0));//get_bits(0, 2 * k)); | ~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:472:35: required from 'void processReadsPairSA(paired_parser*, RapMapIndexT&, MutexT*, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 472 | bool lh = hitCollector(rpair.first.seq, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 473 | saSearcher, | ~~~~~~~~~~~ 474 | leftHCInfo); | ~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:765:37: required from 'bool spawnProcessReadsThreads(uint32_t, paired_parser*, RapMapIndexT&, MutexT&, std::shared_ptr, HitCounters&, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >; MutexT = std::mutex; uint32_t = unsigned int; paired_parser = fastx_parser::FastxParser; HitCounters = rapmap::utils::HitCounters]' 765 | threads.emplace_back(processReadsPairSA, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 766 | parser, | ~~~~~~~ 767 | std::ref(rmi), | ~~~~~~~~~~~~~~ 768 | &iomutex, | ~~~~~~~~~ 769 | outQueue, | ~~~~~~~~~ 770 | std::ref(hctr), | ~~~~~~~~~~~~~~~ 771 | mopts); | ~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:872:31: required from 'bool mapReads(RapMapIndexT&, std::shared_ptr, MappingOpts*) [with RapMapIndexT = RapMapSAIndex > >]' 872 | spawnProcessReadsThreads(nthread, pairParserPtr.get(), rmi, iomutex, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 873 | outLog, hctrs, mopts); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAMapper.cpp:1232:31: required from here 1232 | success = mapReads(rmi, consoleLog, &mopts); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/rapmap-0.15.0+dfsg/include/sparsepp/spp.h:1339:40: warning: casting 'spp::sparsegroup, spp::libc_allocator > >::value_type' {aka 'std::pair'} to 'spp::sparsegroup, spp::libc_allocator > >::mutable_reference' {aka 'std::pair&'} does not use 'constexpr std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = const int; _U2 = int; typename std::enable_if<(std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ConstructiblePair<_U1, _U2>() && std::_PCC<((! std::is_same<_T1, _U1>::value) || (! std::is_same<_T2, _U2>::value)), _T1, _T2>::_ImplicitlyConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = int; _T2 = int]' [-Wcast-user-defined] 1339 | ::new (p) value_type(std::move((mutable_reference)val)); | ^~~~~~~~~~~~~~~~~~~~~~ cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/sha2.hpp:9, from /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/digestpp.hpp:6, from /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:73: In member function 'void digestpp::detail::sha2_provider::transform(const unsigned char*, size_t) [with T = long unsigned int; long unsigned int O = 0]', inlined from 'digestpp::detail::sha2_provider::update(const unsigned char*, size_t)::' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/sha2_provider.hpp:169:61, inlined from 'void digestpp::detail::absorb_bytes(const unsigned char*, size_t, size_t, size_t, unsigned char*, size_t&, T&, TF) [with T = long unsigned int; TF = sha2_provider::update(const unsigned char*, size_t)::]' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/../../detail/absorb_data.hpp:32:12, inlined from 'void digestpp::detail::sha2_provider::update(const unsigned char*, size_t) [with T = long unsigned int; long unsigned int O = 0]' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/sha2_provider.hpp:168:23, inlined from 'digestpp::hasher& digestpp::hasher::absorb(IT, IT) [with IT = __gnu_cxx::__normal_iterator >; HashProvider = digestpp::detail::sha2_provider; Mixin = digestpp::mixin::null_mixin]' at /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/hasher.hpp:170:19, inlined from 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser]' at /build/reproducible-path/rapmap-0.15.0+dfsg/src/RapMapSAIndexer.cpp:581:30: /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/algorithm/detail/sha2_provider.hpp:208:48: warning: array subscript 'const long unsigned int[0]' is partly outside array bounds of 'unsigned char [1]' [-Warray-bounds=] 208 | M[i] = byteswap(reinterpret_cast(data)[blk * 16 + i]); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/digestpp.hpp:5: /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/hasher.hpp: In function 'void indexTranscriptsSA(ParserT*, std::string&, spp::sparse_hash_set >&, bool, bool, uint32_t, bool, std::string&, std::mutex&, std::shared_ptr) [with ParserT = fastx_parser::FastxParser]': /build/reproducible-path/rapmap-0.15.0+dfsg/include/digestpp/hasher.hpp:169:39: note: object 'byte' of size 1 169 | unsigned char byte = *begin++; | ^~~~ At global scope: cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics At global scope: cc1plus: note: unrecognized command-line option '-Wno-unused-local-typedef' may have been intended to silence earlier diagnostics [100%] Linking CXX executable rapmap cd /build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/rapmap.dir/link.txt --verbose=1 /usr/bin/ld: libksw2pp.a(KSW2Aligner.cpp.o): in function `ksw2pp::KSW2Aligner::operator()(unsigned char const*, int, unsigned char const*, int, ksw_extz_t*, ksw2pp::EnumToType<(ksw2pp::KSW2AlignmentType)2>)': ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:362:(.text+0x4dc): undefined reference to `ksw_extz2_sse2' /usr/bin/ld: ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:358:(.text+0x510): undefined reference to `ksw_extz2_sse41' /usr/bin/ld: libksw2pp.a(KSW2Aligner.cpp.o): in function `ksw2pp::KSW2Aligner::operator()(char const*, int, char const*, int, ksw_extz_t*, ksw2pp::EnumToType<(ksw2pp::KSW2AlignmentType)2>)': ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:227:(.text+0x1088): undefined reference to `ksw_extz2_sse2' /usr/bin/ld: ./obj-aarch64-linux-gnu/src/./src/ksw2pp/KSW2Aligner.cpp:223:(.text+0x10cc): undefined reference to `ksw_extz2_sse41' collect2: error: ld returned 1 exit status /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/rapmap-0.15.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -funroll-loops -fPIC -fomit-frame-pointer -O4 -DHAVE_ANSI_TERM -Wall -Wno-unused-function -Wno-unused-local-typedef -std=c++14 -static-libstdc++ -Wno-unknown-pragmas -Wreturn-type -Werror=return-type -Wno-unused-local-typedefs -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rapmap.dir/link.d CMakeFiles/rapmap.dir/RapMap.cpp.o CMakeFiles/rapmap.dir/RapMapSAIndexer.cpp.o CMakeFiles/rapmap.dir/RapMapUtils.cpp.o CMakeFiles/rapmap.dir/RapMapSAMapper.cpp.o CMakeFiles/rapmap.dir/RapMapFileSystem.cpp.o CMakeFiles/rapmap.dir/RapMapSAIndex.cpp.o CMakeFiles/rapmap.dir/HitManager.cpp.o CMakeFiles/rapmap.dir/FastxParser.cpp.o CMakeFiles/rapmap.dir/rank9b.cpp.o CMakeFiles/rapmap.dir/stringpiece.cc.o CMakeFiles/rapmap.dir/xxhash.c.o CMakeFiles/rapmap.dir/bit_array.c.o CMakeFiles/rapmap.dir/edlib.cpp.o CMakeFiles/rapmap.dir/metro/metrohash64.cpp.o -o rapmap -L/build/reproducible-path/rapmap-0.15.0+dfsg/lib -L/build/reproducible-path/rapmap-0.15.0+dfsg/external/install/lib -Wl,-rpath,"\$ORIGIN/../lib:\$ORIGIN/../../lib:\$ORIGIN/:\$ORIGIN/../../external/install/lib" /usr/lib/aarch64-linux-gnu/libz.so -ldivsufsort -ldivsufsort64 -lm -lz /usr/lib/aarch64-linux-gnu/libjemalloc.so -lrt libksw2pp.a -ldl make[4]: *** [src/CMakeFiles/rapmap.dir/build.make:315: src/rapmap] Error 1 make[4]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make[3]: *** [CMakeFiles/Makefile2:150: src/CMakeFiles/rapmap.dir/all] Error 2 make[3]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' make[2]: *** [Makefile:169: all] Error 2 make[2]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg/obj-aarch64-linux-gnu' dh_auto_build: error: cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 returned exit code 2 make[1]: *** [debian/rules:23: override_dh_auto_build] Error 25 make[1]: Leaving directory '/build/reproducible-path/rapmap-0.15.0+dfsg' make: *** [debian/rules:17: binary] Error 2 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2384066 and its subdirectories rapmap failed to build from source. removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/rapmap_0.15.0+dfsg-4.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/rapmap_0.15.0+dfsg-4.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/rapmap_0.15.0+dfsg-4.build1.log.gz' Sun Nov 24 12:46:07 UTC 2024 W: No second build log, what happened? Compressing the 1st log... b1/build.log: 91.4% -- replaced with stdout INSERT 0 1 INSERT 0 1 DELETE 1 [2024-11-24 12:46:07] INFO: Starting at 2024-11-24 12:46:07.773009 [2024-11-24 12:46:07] INFO: Generating the pages of 1 package(s) [2024-11-24 12:46:08] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/arm64/rapmap didn't produce a buildlog, even though it has been built. [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/arm64/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/arm64/rapmap_0.15.0+dfsg-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/arm64/rapmap_0.15.0+dfsg-3.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/armhf/rapmap_0.15.0+dfsg-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/armhf/rapmap_0.15.0+dfsg-3.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/i386/rapmap_0.15.0+dfsg-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/i386/rapmap_0.15.0+dfsg-3.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/arm64/rapmap_0.15.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/arm64/rapmap_0.15.0+dfsg-1.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/rapmap_0.15.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/rapmap_0.15.0+dfsg-1.diff.gz is missing [2024-11-24 12:46:08] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/rapmap_0.15.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/i386/rapmap_0.15.0+dfsg-1.diff.gz is missing [2024-11-24 12:46:08] INFO: Finished at 2024-11-24 12:46:08.834089, took: 0:00:01.061085 Sun Nov 24 12:46:08 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/arm64/rapmap.html Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/rapmap_0.15.0+dfsg-4.rbuild.log: 90.8% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/rapmap_0.15.0+dfsg-4.rbuild.log.gz [2024-11-24 12:46:09] INFO: Starting at 2024-11-24 12:46:09.211886 [2024-11-24 12:46:09] INFO: Generating the pages of 1 package(s) [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/arm64/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/arm64/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/rapmap_0.15.0+dfsg-4.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/rapmap_0.15.0+dfsg-4.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/arm64/rapmap_0.15.0+dfsg-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/arm64/rapmap_0.15.0+dfsg-3.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/armhf/rapmap_0.15.0+dfsg-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/armhf/rapmap_0.15.0+dfsg-3.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/i386/rapmap_0.15.0+dfsg-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/i386/rapmap_0.15.0+dfsg-3.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/arm64/rapmap_0.15.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/arm64/rapmap_0.15.0+dfsg-1.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/rapmap_0.15.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/rapmap_0.15.0+dfsg-1.diff.gz is missing [2024-11-24 12:46:10] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/rapmap_0.15.0+dfsg-1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/i386/rapmap_0.15.0+dfsg-1.diff.gz is missing [2024-11-24 12:46:10] INFO: Finished at 2024-11-24 12:46:10.262852, took: 0:00:01.050969 All cleanup done. Sun Nov 24 12:46:10 UTC 2024 - total duration: 0h 1m 46s. Sun Nov 24 12:46:10 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-tSPrJ98P, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1min 48.641s CPU time consumed: 6.201s