I: pbuilder: network access will be disabled during build I: Current time: Fri Jun 13 03:34:55 +14 2025 I: pbuilder-time-stamp: 1749735295 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 [canu_2.2+dfsg-5.dsc] I: copying [./canu_2.2+dfsg.orig.tar.xz] I: copying [./canu_2.2+dfsg-5.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Oct 20 14:51:55 2023 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./canu_2.2+dfsg-5.dsc: no acceptable signature found dpkg-source: info: extracting canu in canu-2.2+dfsg dpkg-source: info: unpacking canu_2.2+dfsg.orig.tar.xz dpkg-source: info: unpacking canu_2.2+dfsg-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-debian-mhap-at-runtime.patch dpkg-source: info: applying external-mhap.patch dpkg-source: info: applying libsnappy dpkg-source: info: applying stacktrace dpkg-source: info: applying spelling dpkg-source: info: applying cpuid I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/500962/tmp/hooks/D01_modify_environment starting debug: Running on codethink03-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Jun 12 13:35 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/500962/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/500962/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.21(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=42ba65691370407380a5aea1643347cb LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=500962 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.exNVe8bm/pbuilderrc_Zlne --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.exNVe8bm/b2 --logfile b2/build.log canu_2.2+dfsg-5.dsc' SUDO_GID=109 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 11 14:05 /bin -> usr/bin I: user script /srv/workspace/pbuilder/500962/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), libboost-dev, libmeryl-dev, libsnappy-dev, libfilesys-df-perl, mhap, debhelper dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19744 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 libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libmeryl-dev; however: Package libmeryl-dev is not installed. pbuilder-satisfydepends-dummy depends on libsnappy-dev; however: Package libsnappy-dev is not installed. pbuilder-satisfydepends-dummy depends on libfilesys-df-perl; however: Package libfilesys-df-perl is not installed. pbuilder-satisfydepends-dummy depends on mhap; however: Package mhap is not installed. pbuilder-satisfydepends-dummy depends on debhelper; however: Package debhelper 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} binfmt-support{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} debhelper{a} default-jre-headless{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} fastjar{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} jaligner{a} jarwrapper{a} java-common{a} libapache-pom-java{a} libarchive-zip-perl{a} libatinject-jsr330-api-java{a} libboost-dev{a} libboost1.83-dev{a} libcommons-compress-java{a} libcommons-parent-java{a} libdebhelper-perl{a} libelf1t64{a} liberror-prone-java{a} libfastutil-java{a} libfile-stripnondeterminism-perl{a} libfilesys-df-perl{a} libguava-java{a} libicu72{a} libjpeg62-turbo{a} libjsr305-java{a} liblcms2-2{a} libmagic-mgc{a} libmagic1t64{a} libmeryl-dev{a} libnspr4{a} libnss3{a} libpcsclite1{a} libpipeline1{a} libsnappy-dev{a} libsnappy1v5{a} libssw-java{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} mhap{a} openjdk-17-jre-headless{a} openssl{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libasound2t64 libcups2t64 libfontconfig1 libfreetype6 libharfbuzz0b libltdl-dev libmail-sendmail-perl liboss4-salsa-asound2 lynx wget 0 packages upgraded, 61 newly installed, 0 to remove and 0 not upgraded. Need to get 98.9 MB of archives. After unpacking 468 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 binfmt-support arm64 2.2.2-7 [61.4 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.2.1-3 [1324 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20240203 [158 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-4 [1130 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40-8 [93.0 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.12.1-1 [1394 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.71-3 [332 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.21-14 [496 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 ca-certificates-java all 20240118 [11.6 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-7 [517 kB] Get: 22 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 27 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.15.3 [901 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 java-common all 0.75 [6640 B] Get: 36 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.14-2+b1 [144 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-3 [172 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libnspr4 arm64 2:4.35-1.1+b1 [101 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libnss3 arm64 2:3.99-1 [1293 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 libpcsclite1 arm64 2.2.1-1 [54.1 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 openjdk-17-jre-headless arm64 17.0.11+9-1 [42.8 MB] Get: 42 http://deb.debian.org/debian unstable/main arm64 default-jre-headless arm64 2:1.17-75 [3068 B] Get: 43 http://deb.debian.org/debian unstable/main arm64 fastjar arm64 2:0.98-7 [75.5 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 jaligner all 1.0+dfsg-11 [133 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 jarwrapper all 0.79 [10.1 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libapache-pom-java all 29-2 [5276 B] Get: 47 http://deb.debian.org/debian unstable/main arm64 libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get: 48 http://deb.debian.org/debian unstable/main arm64 libboost1.83-dev arm64 1.83.0-2.1+b1 [10.6 MB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Get: 50 http://deb.debian.org/debian unstable/main arm64 libcommons-parent-java all 56-1 [10.8 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libcommons-compress-java all 1.25.0-1 [635 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libguava-java all 32.0.1-1 [2708 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libfastutil-java all 8.5.12+dfsg-1 [19.6 MB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libfilesys-df-perl arm64 0.92-7+b3 [11.7 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libmeryl-dev arm64 0~20150903+r2013-8+b3 [54.3 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libsnappy1v5 arm64 1.2.0-2 [28.3 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libsnappy-dev arm64 1.2.0-2 [43.6 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libssw-java arm64 1.1-14+b1 [17.2 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 mhap all 2.1.3+dfsg-3 [160 kB] Fetched 98.9 MB in 1s (129 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpipeline1: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 ... 19744 files and directories currently installed.) Preparing to unpack .../00-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../01-binfmt-support_2.2.2-7_arm64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package openssl. Preparing to unpack .../03-openssl_3.2.1-3_arm64.deb ... Unpacking openssl (3.2.1-3) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../04-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../05-libmagic-mgc_1%3a5.45-3_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../06-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../07-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../08-gettext-base_0.21-14+b1_arm64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../09-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../10-groff-base_1.23.0-4_arm64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../11-bsdextrautils_2.40-8_arm64.deb ... Unpacking bsdextrautils (2.40-8) ... Selecting previously unselected package man-db. Preparing to unpack .../12-man-db_2.12.1-1_arm64.deb ... Unpacking man-db (2.12.1-1) ... 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_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... 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_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../18-ca-certificates-java_20240118_all.deb ... Unpacking ca-certificates-java (20240118) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../19-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../20-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../21-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../22-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../23-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../24-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../25-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../26-libelf1t64_0.191-1+b1_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../27-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../28-libicu72_72.1-4+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-4+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../29-libxml2_2.9.14+dfsg-1.3+b3_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../30-gettext_0.21-14+b1_arm64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../31-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 .../32-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../33-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package java-common. Preparing to unpack .../34-java-common_0.75_all.deb ... Unpacking java-common (0.75) ... Selecting previously unselected package liblcms2-2:arm64. Preparing to unpack .../35-liblcms2-2_2.14-2+b1_arm64.deb ... Unpacking liblcms2-2:arm64 (2.14-2+b1) ... Selecting previously unselected package libjpeg62-turbo:arm64. Preparing to unpack .../36-libjpeg62-turbo_1%3a2.1.5-3_arm64.deb ... Unpacking libjpeg62-turbo:arm64 (1:2.1.5-3) ... Selecting previously unselected package libnspr4:arm64. Preparing to unpack .../37-libnspr4_2%3a4.35-1.1+b1_arm64.deb ... Unpacking libnspr4:arm64 (2:4.35-1.1+b1) ... Selecting previously unselected package libnss3:arm64. Preparing to unpack .../38-libnss3_2%3a3.99-1_arm64.deb ... Unpacking libnss3:arm64 (2:3.99-1) ... Selecting previously unselected package libpcsclite1:arm64. Preparing to unpack .../39-libpcsclite1_2.2.1-1_arm64.deb ... Unpacking libpcsclite1:arm64 (2.2.1-1) ... Selecting previously unselected package openjdk-17-jre-headless:arm64. Preparing to unpack .../40-openjdk-17-jre-headless_17.0.11+9-1_arm64.deb ... Unpacking openjdk-17-jre-headless:arm64 (17.0.11+9-1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../41-default-jre-headless_2%3a1.17-75_arm64.deb ... Unpacking default-jre-headless (2:1.17-75) ... Selecting previously unselected package fastjar. Preparing to unpack .../42-fastjar_2%3a0.98-7_arm64.deb ... Unpacking fastjar (2:0.98-7) ... Selecting previously unselected package jaligner. Preparing to unpack .../43-jaligner_1.0+dfsg-11_all.deb ... Unpacking jaligner (1.0+dfsg-11) ... Selecting previously unselected package jarwrapper. Preparing to unpack .../44-jarwrapper_0.79_all.deb ... Unpacking jarwrapper (0.79) ... Selecting previously unselected package libapache-pom-java. Preparing to unpack .../45-libapache-pom-java_29-2_all.deb ... 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Unpacking libmeryl-dev (0~20150903+r2013-8+b3) ... Selecting previously unselected package libsnappy1v5:arm64. Preparing to unpack .../57-libsnappy1v5_1.2.0-2_arm64.deb ... Unpacking libsnappy1v5:arm64 (1.2.0-2) ... Selecting previously unselected package libsnappy-dev:arm64. Preparing to unpack .../58-libsnappy-dev_1.2.0-2_arm64.deb ... Unpacking libsnappy-dev:arm64 (1.2.0-2) ... Selecting previously unselected package libssw-java. Preparing to unpack .../59-libssw-java_1.1-14+b1_arm64.deb ... Unpacking libssw-java (1.1-14+b1) ... Selecting previously unselected package mhap. Preparing to unpack .../60-mhap_2.1.3+dfsg-3_all.deb ... Unpacking mhap (2.1.3+dfsg-3) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up fastjar (2:0.98-7) ... Setting up liblcms2-2:arm64 (2.14-2+b1) ... Setting up libfastutil-java (8.5.12+dfsg-1) ... Setting up libboost1.83-dev:arm64 (1.83.0-2.1+b1) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up libjsr305-java (0.1~+svn49-11) ... Setting up bsdextrautils (2.40-8) ... Setting up java-common (0.75) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libfilesys-df-perl (0.92-7+b3) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libssw-java (1.1-14+b1) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up libsnappy1v5:arm64 (1.2.0-2) ... Setting up autotools-dev (20220109.1) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-3) ... Setting up libnspr4:arm64 (2:4.35-1.1+b1) ... Setting up libapache-pom-java (29-2) ... Setting up libatinject-jsr330-api-java (1.0+ds1-5) ... Setting up libmeryl-dev (0~20150903+r2013-8+b3) ... Setting up autopoint (0.21-14) ... Setting up binfmt-support (2.2.2-7) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libpcsclite1:arm64 (2.2.1-1) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libboost-dev:arm64 (1.83.0.2+b2) ... Setting up openssl (3.2.1-3) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.3+b3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-14+b1) ... Setting up jarwrapper (0.79) ... Setting up libtool (2.4.7-7) ... Setting up libsnappy-dev:arm64 (1.2.0-2) ... Setting up libcommons-parent-java (56-1) ... Setting up libnss3:arm64 (2:3.99-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-4) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libcommons-compress-java (1.25.0-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up openjdk-17-jre-headless:arm64 (17.0.11+9-1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up debhelper (13.15.3) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libguava-java (32.0.1-1) ... Processing triggers for libc-bin (2.38-8) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up default-jre-headless (2:1.17-75) ... Setting up jaligner (1.0+dfsg-11) ... Setting up mhap (2.1.3+dfsg-3) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/500962/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/500962/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/canu-2.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../canu_2.2+dfsg-5_source.changes dpkg-buildpackage: info: source package canu dpkg-buildpackage: info: source version 2.2+dfsg-5 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 --sourcedirectory=src/ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/canu-2.2+dfsg' rm -rf Linux-* rm -f src/canu_version.H make[1]: Leaving directory '/build/reproducible-path/canu-2.2+dfsg' dh_autoreconf_clean -O--sourcedirectory=src/ dh_clean -O--sourcedirectory=src/ debian/rules binary dh binary --sourcedirectory=src/ dh_update_autotools_config -O--sourcedirectory=src/ dh_autoreconf -O--sourcedirectory=src/ dh_auto_configure -O--sourcedirectory=src/ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/canu-2.2+dfsg' rm -Rf src/utility/src/utility/libbacktrace src/stores/libsnappy dh_auto_build cd src && make -j12 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/canu-2.2+dfsg/src' /bin/sh: line 1: git: command not found Building release v2.2 For 'Linux' '6.1.0-21-cloud-arm64' as 'aarch64' into '/build/reproducible-path/canu-2.2+dfsg/build/{bin,obj}'. Using '/usr/bin/g++' version '13'. Using user-supplied CXXFLAGS '-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1'. g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/runtime.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/runtime.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/align-parasail-driver.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/align-parasail-driver.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/edlib.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/edlib.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/files.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files-buffered.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/files-buffered.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files-compressed.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/files-compressed.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files-fasta-fastq.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/files-fasta-fastq.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files-memoryMapped.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/files-memoryMapped.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/logging.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/logging.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/strings.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/strings.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/system.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/system.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/system-stackTrace.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/system-stackTrace.C utility/src/utility/files.C: In function 'void AS_UTL_symlink(const char*, const char*)': utility/src/utility/files.C:299:10: warning: ignoring return value of 'int symlink(const char*, const char*)' declared with attribute 'warn_unused_result' [-Wunused-result] 299 | symlink(pathToFile, pathToLink); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ utility/src/utility/files-memoryMapped.C: In constructor 'memoryMappedFile::memoryMappedFile(const char*, memoryMappedFileType)': utility/src/utility/files-memoryMapped.C:70:9: warning: ignoring return value of 'ssize_t read(int, void*, size_t)' declared with attribute 'warn_unused_result' [-Wunused-result] 70 | read(_fd, _data, _length); | ~~~~^~~~~~~~~~~~~~~~~~~~~ utility/src/utility/files-memoryMapped.C: In destructor 'memoryMappedFile::~memoryMappedFile()': utility/src/utility/files-memoryMapped.C:96:10: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)' declared with attribute 'warn_unused_result' [-Wunused-result] 96 | write(_fd, _data, _length), close(_fd); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ utility/src/utility/files.C: In function 'void AS_UTL_loadFileList(const char*, std::vector&)': utility/src/utility/files.C:722:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 722 | fgets(line, FILENAME_MAX, F); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ utility/src/utility/files.C:728:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 728 | fgets(line, FILENAME_MAX, F); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ utility/src/utility/logging.C: In member function 'void logFileInstance::rotate()': utility/src/utility/logging.C:157:46: warning: '.' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 157 | snprintf(_filePrefix, FILENAME_MAX, "%s.%03u.%s", _prefix, _order, _name); | ^ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/logging.H:23, from utility/src/utility/logging.C:20: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void logFileInstance::rotate()' at utility/src/utility/logging.C:157:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 6 and 8205 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utility/src/utility/logging.C: In member function 'void logFileInstance::rotate()': utility/src/utility/logging.C:158:46: warning: '.' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 158 | snprintf(_fileName, FILENAME_MAX, "%s.%03u.%s", _prefix, _order, _name); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void logFileInstance::rotate()' at utility/src/utility/logging.C:158:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 6 and 8205 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utility/src/utility/logging.C: In member function 'void logFileInstance::rotate()': utility/src/utility/logging.C:154:46: warning: '.' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 154 | snprintf(_filePrefix, FILENAME_MAX, "%s.%03u.%s", _prefix, _order, _name); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void logFileInstance::rotate()' at utility/src/utility/logging.C:154:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 6 and 8205 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utility/src/utility/logging.C: In member function 'void logFileInstance::rotate()': utility/src/utility/logging.C:155:46: warning: '.' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 155 | snprintf(_fileName, FILENAME_MAX, "%s.%03u.%s.thr%03d", _prefix, _order, _name, _threadID); | ^ utility/src/utility/logging.C:155:43: note: using the range [-2147483648, 2147483647] for directive argument 155 | snprintf(_fileName, FILENAME_MAX, "%s.%03u.%s.thr%03d", _prefix, _order, _name, _threadID); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void logFileInstance::rotate()' at utility/src/utility/logging.C:155:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 13 and 8220 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void logFileInstance::rotateMessage()' at utility/src/utility/logging.C:170:15, inlined from 'void logFileInstance::writeLog(const char*, va_list)' at utility/src/utility/logging.C:191:20: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: warning: 'int __builtin___snprintf_chk(char*, long unsigned int, int, long unsigned int, const char*, ...)' specified bound 1024 exceeds destination size 256 [-Wstringop-overflow=] 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/sequence.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/sequence.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/types.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/types.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers-exact.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers-exact.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers-files.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers-files.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers-histogram.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers-histogram.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers-reader.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers-reader.C utility/src/utility/system-stackTrace.C: In function 'void AS_UTL_catchCrash(int, siginfo_t*, void*)': utility/src/utility/system-stackTrace.C:40:30: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)' declared with attribute 'warn_unused_result' [-Wunused-result] 40 | #define WRITE_STRING(S) write(2, S, strlen(S)) | ~~~~~^~~~~~~~~~~~~~~~~ utility/src/utility/system-stackTrace.C:79:3: note: in expansion of macro 'WRITE_STRING' 79 | WRITE_STRING("\nFailed with '"); | ^~~~~~~~~~~~ utility/src/utility/system-stackTrace.C:40:30: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)' declared with attribute 'warn_unused_result' [-Wunused-result] 40 | #define WRITE_STRING(S) write(2, S, strlen(S)) | ~~~~~^~~~~~~~~~~~~~~~~ utility/src/utility/system-stackTrace.C:80:3: note: in expansion of macro 'WRITE_STRING' 80 | WRITE_STRING(strsignal(sig_num)); | ^~~~~~~~~~~~ utility/src/utility/system-stackTrace.C:40:30: warning: ignoring return value of 'ssize_t write(int, const void*, size_t)' declared with attribute 'warn_unused_result' [-Wunused-result] 40 | #define WRITE_STRING(S) write(2, S, strlen(S)) | ~~~~~^~~~~~~~~~~~~~~~~ utility/src/utility/system-stackTrace.C:81:3: note: in expansion of macro 'WRITE_STRING' 81 | WRITE_STRING("'; backtrace (libbacktrace):\n"); | ^~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers-writer-block.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers-writer-block.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers-writer-stream.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers-writer-stream.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers-writer.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers-writer.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/kmers.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/kmers.C utility/src/utility/kmers-writer.C:55:2: warning: #warning how to set prefix size for streaming operations? [-Wcpp] 55 | #warning how to set prefix size for streaming operations? | ^~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/bits.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/bits.C utility/src/utility/kmers-reader.C: In member function 'void merylFileReader::initializeFromMasterIndex(bool, bool, bool)': utility/src/utility/kmers-reader.C:133:32: warning: '/merylIndex' directive output may be truncated writing 11 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 133 | snprintf(N, FILENAME_MAX, "%s/merylIndex", _inName); | ^~~~~~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/kmers.H:23, from utility/src/utility/kmers-reader.C:20: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void merylFileReader::initializeFromMasterIndex(bool, bool, bool)' at utility/src/utility/kmers-reader.C:133:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4108 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utility/src/utility/kmers-writer.C: In destructor 'merylFileWriter::~merylFileWriter()': utility/src/utility/kmers-writer.C:144:32: warning: '/merylIndex' directive output may be truncated writing 11 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 144 | snprintf(N, FILENAME_MAX, "%s/merylIndex", _outName); | ^~~~~~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/kmers.H:23, from utility/src/utility/kmers-writer.C:20: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'merylFileWriter::~merylFileWriter()' at utility/src/utility/kmers-writer.C:144:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4108 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/bits-wordArray.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/bits-wordArray.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/hexDump.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/hexDump.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/md5.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/md5.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/mt19937ar.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/mt19937ar.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/speedCounter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/speedCounter.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/sweatShop.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/utility/sweatShop.C cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/cpuid.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/cpuid.c In file included from utility/src/parasail/cpuid.c:12: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/memory.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/memory.c cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/sg.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/sg.c In file included from utility/src/parasail/memory.c:8: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/sg_trace.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/sg_trace.c In file included from utility/src/parasail/sg.c:8: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition In file included from utility/src/parasail/sg_trace.c:8: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/sg_qx_dispatch.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/sg_qx_dispatch.c In file included from utility/src/parasail/sg_qx_dispatch.c:8: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/sg_qb_de_dispatch.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/sg_qb_de_dispatch.c cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/sg_qe_db_dispatch.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/sg_qe_db_dispatch.c In file included from utility/src/parasail/sg_qb_de_dispatch.c:8: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition In file included from utility/src/parasail/sg_qe_db_dispatch.c:8: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition cc -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/parasail/cigar.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utility/src/parasail/cigar.c In file included from utility/src/parasail/cigar.c:1: utility/src/parasail/config.h:92: warning: "HAVE_NEON" redefined 92 | #define HAVE_NEON 0 | : note: this is the location of the previous definition g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/correction/computeGlobalScore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap correction/computeGlobalScore.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/correction/falconConsensus.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap correction/falconConsensus.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/correction/falconConsensus-alignTag.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap correction/falconConsensus-alignTag.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqCache.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqCache.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqLibrary.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqLibrary.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqReadData.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqReadData.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqReadDataWriter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqReadDataWriter.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqStore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqStore.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqStoreBlob.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqStoreBlob.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqStoreConstructor.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqStoreConstructor.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/sqStoreInfo.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/sqStoreInfo.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/ovOverlap.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/ovOverlap.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/ovStore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/ovStore.C stores/ovOverlap.C:201:2: warning: #warning NEEDS TO RETURN FALSE IF FAILED TO DECODE OVERLAP STRING [-Wcpp] 201 | #warning NEEDS TO RETURN FALSE IF FAILED TO DECODE OVERLAP STRING | ^~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/ovStoreWriter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/ovStoreWriter.C stores/ovStoreWriter.C:33:2: warning: #warning not failing if a valid store [-Wcpp] 33 | #warning not failing if a valid store | ^~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/ovStoreFilter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/ovStoreFilter.C In file included from stores/sqStoreBlob.C:18: In function 'void makeBlobName(const char*, uint32, char*)', inlined from 'void sqStoreBlobWriter::writeData(sqReadDataWriter*)' at stores/sqStoreBlob.C:65:17: stores/sqStore.H:106:36: warning: '/blobs.' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 106 | snprintf(blobName, FILENAME_MAX, "%s/blobs.%04" F_U32P , storePath, blobNumber); In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/runtime.H:26, from stores/sqStore.H:21: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void makeBlobName(const char*, uint32, char*)' at stores/sqStore.H:106:11, inlined from 'void sqStoreBlobWriter::writeData(sqReadDataWriter*)' at stores/sqStoreBlob.C:65:17: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4114 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovOverlap.C: In member function 'char* ovOverlap::toString(char*, ovOverlapDisplayType, bool)': stores/ovOverlap.C:55:20: warning: format '%lu' expects argument of type 'long unsigned int', but argument 7 has type 'int' [-Wformat=] 55 | sprintf(str, "%10" F_U32P " %10" F_U32P " %c %6" F_U32P " %6" F_OVP " %6" F_OVP " %6" F_OVP " %6" F_OVP " %7.6f %s %s %s%s", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 59 | dat.ovl.ahg5, dat.ovl.ahg3, | ~~~~~~~~~~~~ | | | int stores/ovOverlap.C:55:20: warning: format '%lu' expects argument of type 'long unsigned int', but argument 8 has type 'int' [-Wformat=] 55 | sprintf(str, "%10" F_U32P " %10" F_U32P " %c %6" F_U32P " %6" F_OVP " %6" F_OVP " %6" F_OVP " %6" F_OVP " %7.6f %s %s %s%s", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 59 | dat.ovl.ahg5, dat.ovl.ahg3, | ~~~~~~~~~~~~ | | | int stores/ovOverlap.C:55:20: warning: format '%lu' expects argument of type 'long unsigned int', but argument 9 has type 'int' [-Wformat=] 55 | sprintf(str, "%10" F_U32P " %10" F_U32P " %c %6" F_U32P " %6" F_OVP " %6" F_OVP " %6" F_OVP " %6" F_OVP " %7.6f %s %s %s%s", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 60 | dat.ovl.bhg5, dat.ovl.bhg3, | ~~~~~~~~~~~~ | | | int stores/ovOverlap.C:55:20: warning: format '%lu' expects argument of type 'long unsigned int', but argument 10 has type 'int' [-Wformat=] 55 | sprintf(str, "%10" F_U32P " %10" F_U32P " %c %6" F_U32P " %6" F_OVP " %6" F_OVP " %6" F_OVP " %6" F_OVP " %7.6f %s %s %s%s", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 60 | dat.ovl.bhg5, dat.ovl.bhg3, | ~~~~~~~~~~~~ | | | int In function 'void makeBlobName(const char*, uint32, char*)', inlined from 'readBuffer* sqStoreBlobReader::getBuffer(sqReadMeta*)' at stores/sqStoreBlob.C:113:17: stores/sqStore.H:106:36: warning: '/blobs.' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 106 | snprintf(blobName, FILENAME_MAX, "%s/blobs.%04" F_U32P , storePath, blobNumber); stores/sqStore.H:106:36: note: directive argument in the range [1, 65535] In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void makeBlobName(const char*, uint32, char*)' at stores/sqStore.H:106:11, inlined from 'readBuffer* sqStoreBlobReader::getBuffer(sqReadMeta*)' at stores/sqStoreBlob.C:113:17: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4109 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/ovStoreFile.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/ovStoreFile.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/ovStoreHistogram.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/ovStoreHistogram.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/tgStore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/tgStore.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/tgTig.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/tgTig.C stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:329:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 329 | snprintf(No, FILENAME_MAX, "%s/version.%03" F_U32P, sqStore_path(), V); In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/runtime.H:26, from stores/sqStore.H:21, from stores/sqStoreConstructor.C:18: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:329:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 13 and 4109 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:337:35: warning: '/libraries' directive output may be truncated writing 10 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 337 | snprintf(No, FILENAME_MAX, "%s/libraries", sqStore_path()); | ^~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:337:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 11 and 4107 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:338:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 338 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/libraries", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:338:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 23 and 4126 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:341:35: warning: '/reads' directive output may be truncated writing 6 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 341 | snprintf(No, FILENAME_MAX, "%s/reads", sqStore_path()); | ^~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:341:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 7 and 4103 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:342:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 342 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/reads", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:342:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 19 and 4122 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:345:35: warning: '/reads-rawu' directive output may be truncated writing 11 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 345 | snprintf(No, FILENAME_MAX, "%s/reads-rawu", sqStore_path()); | ^~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:345:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4108 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:346:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 346 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/reads-rawu", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:346:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 24 and 4127 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:349:35: warning: '/reads-rawc' directive output may be truncated writing 11 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 349 | snprintf(No, FILENAME_MAX, "%s/reads-rawc", sqStore_path()); | ^~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:349:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4108 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:350:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 350 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/reads-rawc", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:350:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 24 and 4127 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:353:35: warning: '/reads-coru' directive output may be truncated writing 11 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 353 | snprintf(No, FILENAME_MAX, "%s/reads-coru", sqStore_path()); | ^~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:353:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4108 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:354:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 354 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/reads-coru", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:354:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 24 and 4127 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:357:35: warning: '/reads-corc' directive output may be truncated writing 11 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 357 | snprintf(No, FILENAME_MAX, "%s/reads-corc", sqStore_path()); | ^~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:357:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4108 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:358:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 358 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/reads-corc", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:358:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 24 and 4127 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:361:35: warning: '/info' directive output may be truncated writing 5 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 361 | snprintf(No, FILENAME_MAX, "%s/info", sqStore_path()); | ^~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:361:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 6 and 4102 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:362:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 362 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/info", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:362:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 18 and 4121 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:365:35: warning: '/info.txt' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 365 | snprintf(No, FILENAME_MAX, "%s/info.txt", sqStore_path()); | ^~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:365:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 10 and 4106 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:366:32: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 366 | snprintf(Nn, FILENAME_MAX, "%s/version.%03" F_U32P "/info.txt", sqStore_path(), V); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:366:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 22 and 4125 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreConstructor.C: In destructor 'sqStore::~sqStore()': stores/sqStoreConstructor.C:332:34: warning: '/version.' directive output may be truncated writing 9 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 332 | snprintf(No, FILENAME_MAX, "%s/version.%03" F_U32P, sqStore_path(), V); In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'sqStore::~sqStore()' at stores/sqStoreConstructor.C:332:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 13 and 4116 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'uint64 ovStoreSliceWriter::loadBucketSizes(uint64*)': stores/ovStoreWriter.C:190:37: warning: '/bucket' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 190 | snprintf(name, FILENAME_MAX, "%s/bucket%04u/slice%04u", _storePath, i, _sliceNum); | ^~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/runtime.H:26, from stores/ovStore.H:21, from stores/ovStoreWriter.C:18: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'uint64 ovStoreSliceWriter::loadBucketSizes(uint64*)' at stores/ovStoreWriter.C:190:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 22 and 4130 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'uint64 ovStoreSliceWriter::loadBucketSizes(uint64*)': stores/ovStoreWriter.C:199:37: warning: '/bucket' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 199 | snprintf(name, FILENAME_MAX, "%s/bucket%04u/sliceSizes", _storePath, i); | ^~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'uint64 ovStoreSliceWriter::loadBucketSizes(uint64*)' at stores/ovStoreWriter.C:199:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 23 and 4125 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/tgTigSizeAnalysis.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/tgTigSizeAnalysis.C stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::loadOverlapsFromBucket(uint32, uint64, ovOverlap*, uint64&)': stores/ovStoreWriter.C:222:35: warning: '/bucket' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 222 | snprintf(name, FILENAME_MAX, "%s/bucket%04u/slice%04u", _storePath, bucket, _sliceNum); | ^~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::loadOverlapsFromBucket(uint32, uint64, ovOverlap*, uint64&)' at stores/ovStoreWriter.C:222:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 22 and 4130 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::writeOverlaps(ovOverlap*, uint64)': stores/ovStoreWriter.C:306:40: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 306 | snprintf(indexName, FILENAME_MAX, "%s/%04u.index", _storePath, _sliceNum); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::writeOverlaps(ovOverlap*, uint64)' at stores/ovStoreWriter.C:306:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4114 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStore.H: In member function 'void ovStoreSliceWriter::writeOverlaps(ovOverlap*, uint64)': stores/ovStore.H:88:39: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 88 | snprintf(name, FILENAME_MAX, "%s/%04u.info", path, index); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreInfo::save(const char*, uint32, bool)' at stores/ovStore.H:88:15, inlined from 'void ovStoreSliceWriter::writeOverlaps(ovOverlap*, uint64)' at stores/ovStoreWriter.C:311:12: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 11 and 4113 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/tgTigMultiAlignDisplay.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/tgTigMultiAlignDisplay.C stores/ovStore.H: In member function 'void ovStoreSliceWriter::mergeInfoFiles()': stores/ovStore.H:63:39: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 63 | snprintf(name, FILENAME_MAX, "%s/%04u.info", path, index); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreInfo::load(const char*, uint32, bool)' at stores/ovStore.H:63:15, inlined from 'void ovStoreSliceWriter::mergeInfoFiles()' at stores/ovStoreWriter.C:337:23: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 11 and 4113 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::mergeInfoFiles()': stores/ovStoreWriter.C:366:42: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 366 | snprintf(indexName, FILENAME_MAX, "%s/%04u.index", _storePath, ss); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::mergeInfoFiles()' at stores/ovStoreWriter.C:366:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4114 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStore.H: In member function 'void ovStoreSliceWriter::mergeInfoFiles()': stores/ovStore.H:86:39: warning: '/info' directive output may be truncated writing 5 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 86 | snprintf(name, FILENAME_MAX, "%s/info", path); | ^~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreInfo::save(const char*, uint32, bool)' at stores/ovStore.H:86:15, inlined from 'void ovStoreSliceWriter::mergeInfoFiles()' at stores/ovStoreWriter.C:389:12: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 6 and 4102 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::removeOverlapSlice()': stores/ovStoreWriter.C:448:37: warning: '/bucket' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 448 | snprintf(name, FILENAME_MAX, "%s/bucket%04u/slice%04u", _storePath, bb, _sliceNum); | ^~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::removeOverlapSlice()' at stores/ovStoreWriter.C:448:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 22 and 4130 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/stores/objectStore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap stores/objectStore.C stores/ovStoreHistogram.C: In member function 'void ovErateLengthHistogram::addOverlap(ovOverlap*)': stores/ovStoreHistogram.C:337:21: warning: format '%lu' expects argument of type 'long unsigned int', but argument 5 has type 'int' [-Wformat=] 337 | fprintf(stderr, "BOGUS overlap - id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP " -- id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 | overlap->a_iid, alen, overlap->dat.ovl.ahg5, overlap->dat.ovl.ahg3, | ~~~~~~~~~~~~~~~~~~~~~ | | | int stores/ovStoreHistogram.C:337:21: warning: format '%lu' expects argument of type 'long unsigned int', but argument 6 has type 'int' [-Wformat=] 337 | fprintf(stderr, "BOGUS overlap - id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP " -- id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 | overlap->a_iid, alen, overlap->dat.ovl.ahg5, overlap->dat.ovl.ahg3, | ~~~~~~~~~~~~~~~~~~~~~ | | | int stores/ovStoreHistogram.C:337:21: warning: format '%lu' expects argument of type 'long unsigned int', but argument 9 has type 'int' [-Wformat=] 337 | fprintf(stderr, "BOGUS overlap - id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP " -- id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 | overlap->a_iid, alen, overlap->dat.ovl.ahg5, overlap->dat.ovl.ahg3, 339 | overlap->b_iid, blen, overlap->dat.ovl.bhg5, overlap->dat.ovl.bhg3, | ~~~~~~~~~~~~~~~~~~~~~ | | | int stores/ovStoreHistogram.C:337:21: warning: format '%lu' expects argument of type 'long unsigned int', but argument 10 has type 'int' [-Wformat=] 337 | fprintf(stderr, "BOGUS overlap - id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP " -- id %8u (len %6d) hangs %6" F_OVP " %6" F_OVP "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 338 | overlap->a_iid, alen, overlap->dat.ovl.ahg5, overlap->dat.ovl.ahg3, 339 | overlap->b_iid, blen, overlap->dat.ovl.bhg5, overlap->dat.ovl.bhg3, | ~~~~~~~~~~~~~~~~~~~~~ | | | int stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::checkSortingIsComplete()': stores/ovStoreWriter.C:467:38: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 467 | snprintf(nameF, FILENAME_MAX, "%s/%04u.info", _storePath, i); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::checkSortingIsComplete()' at stores/ovStoreWriter.C:467:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 11 and 4113 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::checkSortingIsComplete()': stores/ovStoreWriter.C:468:38: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 468 | snprintf(nameI, FILENAME_MAX, "%s/%04u.index", _storePath, i); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::checkSortingIsComplete()' at stores/ovStoreWriter.C:468:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4114 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::removeAllIntermediateFiles()': stores/ovStoreWriter.C:499:37: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 499 | snprintf(name, FILENAME_MAX, "%s/%04u.index", _storePath, ss); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::removeAllIntermediateFiles()' at stores/ovStoreWriter.C:499:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4114 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::removeAllIntermediateFiles()': stores/ovStoreWriter.C:502:37: warning: '/' directive output may be truncated writing 1 byte into a region of size between 0 and 4096 [-Wformat-truncation=] 502 | snprintf(name, FILENAME_MAX, "%s/%04u.info", _storePath, ss); | ^ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::removeAllIntermediateFiles()' at stores/ovStoreWriter.C:502:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 11 and 4113 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::removeAllIntermediateFiles()': stores/ovStoreWriter.C:519:37: warning: '/bucket' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 519 | snprintf(name, FILENAME_MAX, "%s/bucket%04u/sliceSizes", _storePath, bb); | ^~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::removeAllIntermediateFiles()' at stores/ovStoreWriter.C:519:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 23 and 4125 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::removeAllIntermediateFiles()': stores/ovStoreWriter.C:523:39: warning: '/bucket' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 523 | snprintf(name, FILENAME_MAX, "%s/bucket%04u/slice%04u", _storePath, bb, ss); | ^~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::removeAllIntermediateFiles()' at stores/ovStoreWriter.C:523:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 22 and 4130 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/ovStoreWriter.C: In member function 'void ovStoreSliceWriter::removeAllIntermediateFiles()': stores/ovStoreWriter.C:527:37: warning: '/bucket' directive output may be truncated writing 7 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 527 | snprintf(name, FILENAME_MAX, "%s/bucket%04u", _storePath, bb); | ^~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStoreSliceWriter::removeAllIntermediateFiles()' at stores/ovStoreWriter.C:527:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4114 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/overlapReadCache.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/overlapReadCache.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/liboverlap/Binomial_Bound.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/liboverlap/Binomial_Bound.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/liboverlap/Display_Alignment.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/liboverlap/Display_Alignment.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-allocateMoreSpace.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance-allocateMoreSpace.C stores/tgTig.C: In member function 'bool tgTig::loadLayout(FILE*)': stores/tgTig.C:537:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 537 | fgets(LINE, LINEmax, F); LINEnum++; | ~~~~~^~~~~~~~~~~~~~~~~~ stores/tgTig.C:667:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 667 | fgets(LINE, LINEmax, F); LINEnum++; | ~~~~~^~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'void tgStore::purgeVersion(uint32)': stores/tgStore.C:168:36: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 168 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.dat", _path, version); AS_UTL_unlink(_name); | ^~~~~~~~ stores/tgStore.C:168:33: note: using the range [-2147483648, 2147483647] for directive argument 168 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.dat", _path, version); AS_UTL_unlink(_name); | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/runtime.H:26, from stores/tgStore.C:18: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void tgStore::purgeVersion(uint32)' at stores/tgStore.C:168:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4120 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'void tgStore::purgeVersion(uint32)': stores/tgStore.C:169:36: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 169 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.ctg", _path, version); AS_UTL_unlink(_name); | ^~~~~~~~ stores/tgStore.C:169:33: note: using the range [-2147483648, 2147483647] for directive argument 169 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.ctg", _path, version); AS_UTL_unlink(_name); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void tgStore::purgeVersion(uint32)' at stores/tgStore.C:169:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4120 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'void tgStore::purgeVersion(uint32)': stores/tgStore.C:170:36: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 170 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.utg", _path, version); AS_UTL_unlink(_name); | ^~~~~~~~ stores/tgStore.C:170:33: note: using the range [-2147483648, 2147483647] for directive argument 170 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.utg", _path, version); AS_UTL_unlink(_name); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void tgStore::purgeVersion(uint32)' at stores/tgStore.C:170:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4120 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'void tgStore::dumpMASR(tgStoreEntry*&, uint32&, uint32)': stores/tgStore.C:571:36: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 571 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, V); | ^~~~~~~~ stores/tgStore.C:571:33: note: using the range [-2147483648, 2147483647] for directive argument 571 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, V); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void tgStore::dumpMASR(tgStoreEntry*&, uint32&, uint32)' at stores/tgStore.C:571:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4120 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'void tgStore::loadMASR(tgStoreEntry*&, uint32&, uint32&, uint32)': stores/tgStore.C:603:40: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 603 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, i); | ^~~~~~~~ stores/tgStore.C:603:37: note: directive argument in the range [1, 2147483647] 603 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, i); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void tgStore::loadMASR(tgStoreEntry*&, uint32&, uint32&, uint32)' at stores/tgStore.C:603:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4119 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'void tgStore::loadMASR(tgStoreEntry*&, uint32&, uint32&, uint32)': stores/tgStore.C:614:36: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 614 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, V); | ^~~~~~~~ stores/tgStore.C:614:33: note: using the range [-2147483648, 2147483647] for directive argument 614 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, V); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void tgStore::loadMASR(tgStoreEntry*&, uint32&, uint32&, uint32)' at stores/tgStore.C:614:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4120 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'void tgStore::loadMASR(tgStoreEntry*&, uint32&, uint32&, uint32)': stores/tgStore.C:618:38: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 618 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, V); | ^~~~~~~~ stores/tgStore.C:618:35: note: using the range [-2147483648, 2147483647] for directive argument 618 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.tig", _path, V); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void tgStore::loadMASR(tgStoreEntry*&, uint32&, uint32&, uint32)' at stores/tgStore.C:618:13: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4120 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/tgStore.C: In member function 'FILE* tgStore::openDB(uint32)': stores/tgStore.C:672:36: warning: '/seqDB.v' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 672 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.dat", _path, version); | ^~~~~~~~ stores/tgStore.C:672:33: note: using the range [-2147483648, 2147483647] for directive argument 672 | snprintf(_name, FILENAME_MAX, "%s/seqDB.v%03d.dat", _path, version); | ^~~~~~~~~~~~~~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'FILE* tgStore::openDB(uint32)' at stores/tgStore.C:672:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 16 and 4120 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-extend.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance-extend.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-forward.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance-forward.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/overlapInCore/liboverlap/prefixEditDistance-reverse.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap overlapInCore/liboverlap/prefixEditDistance-reverse.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libNDalign/NDalign.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libNDalign/NDalign.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libNDalign/Binomial_Bound.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libNDalign/Binomial_Bound.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-allocateMoreSpace.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-allocateMoreSpace.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-extend.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-extend.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-forward.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-forward.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libNDalign/NDalgorithm-reverse.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libNDalign/NDalgorithm-reverse.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utgcns/libpbutgcns/AlnGraphBoost.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap utgcns/libpbutgcns/AlnGraphBoost.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/gfa/gfa.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap gfa/gfa.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/gfa/bed.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src -Iutility/src/utility -Iutility/src/parasail -Istores -Istores/libsnappy -Ialignment -Iutgcns/libNDalign -Iutgcns/libcns -Iutgcns/libpbutgcns -Iutgcns/libNDFalcon -Iutgcns/libboost -IoverlapInCore -IoverlapInCore/liboverlap gfa/bed.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/dumpBlob/stores/dumpBlob.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/dumpBlob.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreBuild/stores/ovStoreBuild.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/ovStoreBuild.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreConfig/stores/ovStoreConfig.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/ovStoreConfig.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreBucketizer/stores/ovStoreBucketizer.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/ovStoreBucketizer.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreSorter/stores/ovStoreSorter.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/ovStoreSorter.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreIndexer/stores/ovStoreIndexer.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/ovStoreIndexer.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreDump/stores/ovStoreDump.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/ovStoreDump.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreStats/stores/ovStoreStats.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/ovStoreStats.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/sqStoreCreate/stores/sqStoreCreate.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/sqStoreCreate.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/sqStoreDumpFASTQ/stores/sqStoreDumpFASTQ.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Istores -Iutility/src/utility -IoverlapBasedTrimming stores/sqStoreDumpFASTQ.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/sqStoreDumpMetaData/stores/sqStoreDumpMetaData.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Iseqrequester/src/seqrequester stores/sqStoreDumpMetaData.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/sqStoreDumpMetaData/seqrequester/src/seqrequester/summarize.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Iseqrequester/src/seqrequester seqrequester/src/seqrequester/summarize.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/tgStoreCompress/stores/tgStoreCompress.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/tgStoreCompress.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/tgStoreDump/stores/tgStoreDump.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/tgStoreDump.C stores/tgStoreDump.C:643:2: warning: #warning replace this with genericStatistics [-Wcpp] 643 | #warning replace this with genericStatistics | ^~~~~~~ stores/sqStoreDumpFASTQ.C: In member function 'FILE* libOutput::openFASTQ()': stores/sqStoreDumpFASTQ.C:70:36: warning: '.fastq' directive output may be truncated writing 6 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 70 | snprintf(N, FILENAME_MAX, "%s.fastq%s", _p, _s); | ^~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/runtime.H:26, from stores/sqStoreDumpFASTQ.C:18: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'FILE* libOutput::openFASTQ()' at stores/sqStoreDumpFASTQ.C:70:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 7 and 8197 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreDumpFASTQ.C: In member function 'FILE* libOutput::openFASTQ()': stores/sqStoreDumpFASTQ.C:68:37: warning: '%s' directive output may be truncated writing up to 4095 bytes into a region of size between 0 and 4095 [-Wformat-truncation=] 68 | snprintf(N, FILENAME_MAX, "%s.%s.fastq%s", _p, _n, _s); | ^~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'FILE* libOutput::openFASTQ()' at stores/sqStoreDumpFASTQ.C:68:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 8 and 12293 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/tgStoreDump/stores/tgTigSizeAnalysis.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/tgTigSizeAnalysis.C stores/sqStoreDumpFASTQ.C: In member function 'FILE* libOutput::openFASTA()': stores/sqStoreDumpFASTQ.C:100:36: warning: '.fasta' directive output may be truncated writing 6 bytes into a region of size between 1 and 4096 [-Wformat-truncation=] 100 | snprintf(N, FILENAME_MAX, "%s.fasta%s", _p, _s); | ^~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'FILE* libOutput::openFASTA()' at stores/sqStoreDumpFASTQ.C:100:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 7 and 8197 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/sqStoreDumpFASTQ.C: In member function 'FILE* libOutput::openFASTA()': stores/sqStoreDumpFASTQ.C:98:37: warning: '%s' directive output may be truncated writing up to 4095 bytes into a region of size between 0 and 4095 [-Wformat-truncation=] 98 | snprintf(N, FILENAME_MAX, "%s.%s.fasta%s", _p, _n, _s); | ^~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'FILE* libOutput::openFASTA()' at stores/sqStoreDumpFASTQ.C:98:15: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 8 and 12293 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/tgStoreLoad/stores/tgStoreLoad.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/tgStoreLoad.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/tgTigDisplay/stores/tgTigDisplay.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/tgTigDisplay.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/loadCorrectedReads/stores/loadCorrectedReads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/loadCorrectedReads.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/loadTrimmedReads/stores/loadTrimmedReads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Istores -Iutility/src/utility -IoverlapBasedTrimming stores/loadTrimmedReads.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/loadErates/stores/loadErates.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility stores/loadErates.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/meryl.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/meryl.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylCommandBuilder.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylCommandBuilder.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylCountArray.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylCountArray.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylInput.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylInput.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-count.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylOp-count.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-countSimple.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylOp-countSimple.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-countThreads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylOp-countThreads.C stores/loadErates.C: In member function 'void ovStore::addEvalues(std::vector&)': stores/loadErates.C:59:41: warning: '/evalues.WORKING' directive output may be truncated writing 16 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 59 | snprintf(evalueTemp, FILENAME_MAX, "%s/evalues.WORKING", _storePath); | ^~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/runtime.H:26, from stores/loadErates.C:18: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStore::addEvalues(std::vector&)' at stores/loadErates.C:59:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 17 and 4113 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ stores/loadErates.C: In member function 'void ovStore::addEvalues(std::vector&)': stores/loadErates.C:60:41: warning: '/evalues' directive output may be truncated writing 8 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 60 | snprintf(evalueName, FILENAME_MAX, "%s/evalues", _storePath); | ^~~~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void ovStore::addEvalues(std::vector&)' at stores/loadErates.C:60:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 9 and 4105 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-histogram.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylOp-histogram.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-nextMer.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylOp-nextMer.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -DCANU -Iutility/src/utility -Istores meryl/src/meryl/merylOp.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapCheck/overlapCheck/overlapCheck.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapCheck/overlapCheck.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapInCore/overlapInCore/overlapInCore.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapInCore.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapInCore/overlapInCore/overlapInCore-Build_Hash_Index.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapInCore-Build_Hash_Index.C meryl/src/meryl/merylCommandBuilder.C: In member function 'void merylCommandBuilder::initialize(char*)': meryl/src/meryl/merylCommandBuilder.C:160:41: warning: '/merylIndex' directive output may be truncated writing 11 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 160 | snprintf(_indexName, FILENAME_MAX, "%s/merylIndex", _optString); | ^~~~~~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/runtime.H:26, from meryl/src/meryl/meryl.H:22, from meryl/src/meryl/merylCommandBuilder.C:19: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void merylCommandBuilder::initialize(char*)' at meryl/src/meryl/merylCommandBuilder.C:160:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4108 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ meryl/src/meryl/merylCommandBuilder.C: In member function 'void merylCommandBuilder::initialize(char*)': meryl/src/meryl/merylCommandBuilder.C:161:41: warning: '/info' directive output may be truncated writing 5 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 161 | snprintf(_sqInfName, FILENAME_MAX, "%s/info", _optString); | ^~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void merylCommandBuilder::initialize(char*)' at meryl/src/meryl/merylCommandBuilder.C:161:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 6 and 4102 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ meryl/src/meryl/merylCommandBuilder.C: In member function 'void merylCommandBuilder::initialize(char*)': meryl/src/meryl/merylCommandBuilder.C:162:41: warning: '/reads' directive output may be truncated writing 6 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 162 | snprintf(_sqRdsName, FILENAME_MAX, "%s/reads", _optString); | ^~~~~~ In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void merylCommandBuilder::initialize(char*)' at meryl/src/meryl/merylCommandBuilder.C:162:11: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 7 and 4103 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapInCore/overlapInCore/overlapInCore-Find_Overlaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapInCore-Find_Overlaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapInCore/overlapInCore/overlapInCore-Output.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapInCore-Output.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapInCore/overlapInCore/overlapInCore-Process_Overlaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapInCore-Process_Overlaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapInCore/overlapInCore/overlapInCore-Process_String_Overlaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapInCore-Process_String_Overlaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapInCorePartition/overlapInCore/overlapInCorePartition.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapInCorePartition.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapConvert/overlapInCore/overlapConvert.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapConvert.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapImport/overlapInCore/overlapImport.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapInCore/overlapImport.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapPair/overlapInCore/overlapPair.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib overlapInCore/overlapPair.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/edalign/overlapInCore/edalign.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib overlapInCore/edalign.C overlapInCore/overlapInCore-Build_Hash_Index.C: In function 'void Mark_Skip_Kmers()': overlapInCore/overlapInCore-Build_Hash_Index.C:209:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 209 | fgets(line, 1024, F); | ~~~~~^~~~~~~~~~~~~~~ overlapInCore/overlapPair.C:463:2: warning: #warning do we need to check for contained too? [-Wcpp] 463 | #warning do we need to check for contained too? | ^~~~~~~ overlapInCore/overlapImport.C: In function 'int main(int, char**)': overlapInCore/overlapImport.C:254:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 254 | fgets(S, 1024, in->file()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ overlapInCore/overlapImport.C:284:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 284 | fgets(S, 1024, in->file()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/prefixEditDistance-matchLimitGenerate/overlapInCore/liboverlap/prefixEditDistance-matchLimitGenerate.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapInCore/liboverlap/prefixEditDistance-matchLimitGenerate.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/mhapConvert/mhap/mhapConvert.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -Imhap/liboverlap mhap/mhapConvert.C overlapInCore/edalign.C: In function 'bool readLine(FILE*, char*, int32, int32&, splitToWords&)': overlapInCore/edalign.C:30:8: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 30 | fgets(line, lineMax, file); | ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/mmapConvert/minimap/mmapConvert.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -Iminimap/liboverlap minimap/mmapConvert.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/filterCorrectionOverlaps/correction/filterCorrectionOverlaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores correction/filterCorrectionOverlaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/generateCorrectionLayouts/correction/generateCorrectionLayouts.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -Iutgcns correction/generateCorrectionLayouts.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/generateCorrectionLayouts/utgcns/stashContains.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -Iutgcns utgcns/stashContains.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/filterCorrectionLayouts/correction/filterCorrectionLayouts.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores correction/filterCorrectionLayouts.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/falconsense/correction/falconsense.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -Iutgcns correction/falconsense.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/falconsense/utgcns/stashContains.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -Iutgcns utgcns/stashContains.C minimap/mmapConvert.C: In function 'int main(int, char**)': minimap/mmapConvert.C:127:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 7 has type 'int' [-Wformat=] 127 | fprintf(stderr, "INVALID OVERLAP " F_U32 " (len %6d) " F_U32 " (len %6d) hangs " F_OV " " F_OV " - " F_OV " " F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 130 | ov.dat.ovl.ahg5, ov.dat.ovl.ahg3, | ~~~~~~~~~~~~~~~ | | | int minimap/mmapConvert.C:127:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 8 has type 'int' [-Wformat=] 127 | fprintf(stderr, "INVALID OVERLAP " F_U32 " (len %6d) " F_U32 " (len %6d) hangs " F_OV " " F_OV " - " F_OV " " F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 130 | ov.dat.ovl.ahg5, ov.dat.ovl.ahg3, | ~~~~~~~~~~~~~~~ | | | int minimap/mmapConvert.C:127:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 9 has type 'int' [-Wformat=] 127 | fprintf(stderr, "INVALID OVERLAP " F_U32 " (len %6d) " F_U32 " (len %6d) hangs " F_OV " " F_OV " - " F_OV " " F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 131 | ov.dat.ovl.bhg5, ov.dat.ovl.bhg3, | ~~~~~~~~~~~~~~~ | | | int minimap/mmapConvert.C:127:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 10 has type 'int' [-Wformat=] 127 | fprintf(stderr, "INVALID OVERLAP " F_U32 " (len %6d) " F_U32 " (len %6d) hangs " F_OV " " F_OV " - " F_OV " " F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 131 | ov.dat.ovl.bhg5, ov.dat.ovl.bhg3, | ~~~~~~~~~~~~~~~ | | | int mhap/mhapConvert.C: In function 'int main(int, char**)': mhap/mhapConvert.C:147:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 8 has type 'int' [-Wformat=] 147 | fprintf(stderr, "%s\nINVALID OVERLAP read " F_U32 " (len %d) and read " F_U32 " (len %d) hangs " F_OV "/" F_OV " and " F_OV "/" F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 151 | ov.dat.ovl.ahg5, ov.dat.ovl.ahg3, | ~~~~~~~~~~~~~~~ | | | int mhap/mhapConvert.C:147:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 9 has type 'int' [-Wformat=] 147 | fprintf(stderr, "%s\nINVALID OVERLAP read " F_U32 " (len %d) and read " F_U32 " (len %d) hangs " F_OV "/" F_OV " and " F_OV "/" F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 151 | ov.dat.ovl.ahg5, ov.dat.ovl.ahg3, | ~~~~~~~~~~~~~~~ | | | int mhap/mhapConvert.C:147:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 10 has type 'int' [-Wformat=] 147 | fprintf(stderr, "%s\nINVALID OVERLAP read " F_U32 " (len %d) and read " F_U32 " (len %d) hangs " F_OV "/" F_OV " and " F_OV "/" F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 152 | ov.dat.ovl.bhg5, ov.dat.ovl.bhg3, | ~~~~~~~~~~~~~~~ | | | int mhap/mhapConvert.C:147:25: warning: format '%lu' expects argument of type 'long unsigned int', but argument 11 has type 'int' [-Wformat=] 147 | fprintf(stderr, "%s\nINVALID OVERLAP read " F_U32 " (len %d) and read " F_U32 " (len %d) hangs " F_OV "/" F_OV " and " F_OV "/" F_OV "%s\n", | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 152 | ov.dat.ovl.bhg5, ov.dat.ovl.bhg3, | ~~~~~~~~~~~~~~~ | | | int g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/errorEstimate/correction/errorEstimate.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore -Iutgcns/libNDalign -IoverlapErrorAdjustment correction/errorEstimate.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitHaplotype/haplotyping/splitHaplotype.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -Iutgcns haplotyping/splitHaplotype.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/trimReads/overlapBasedTrimming/trimReads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/trimReads.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/trimReads/overlapBasedTrimming/trimReads-bestEdge.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/trimReads-bestEdge.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/trimReads/overlapBasedTrimming/trimReads-largestCovered.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/trimReads-largestCovered.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/splitReads.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads-workUnit.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/splitReads-workUnit.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads-subReads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/splitReads-subReads.C correction/falconsense.C: In function 'void loadReadList(const char*, uint32, uint32, std::set&)': correction/falconsense.C:64:13: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 64 | for (fgets(L, 1024, R); | ~~~~~^~~~~~~~~~~~ correction/falconsense.C:66:13: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 66 | fgets(L, 1024, R)) { | ~~~~~^~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads-trimBad.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/splitReads-trimBad.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/adjustNormal.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/adjustNormal.C In file included from overlapBasedTrimming/trimReads.C:19: overlapBasedTrimming/trimStat.H: In member function 'void trimStat::generatePlots(const char*, const char*, uint32)': overlapBasedTrimming/trimStat.H:69:11: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result] 69 | system(N); | ~~~~~~^~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/adjustFlipped.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/adjustFlipped.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/mergeRanges/overlapBasedTrimming/mergeRanges.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapBasedTrimming/mergeRanges.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/overlapAlign.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib overlapAlign/overlapAlign.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/computeOverlapAlignment.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib overlapAlign/computeOverlapAlignment.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/trimRead.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib overlapAlign/trimRead.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/clearRangeFile.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib overlapAlign/clearRangeFile.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/computeAlignments.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib overlapAlign/computeAlignments.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Analyze_Alignment.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors-Analyze_Alignment.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Output.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors-Output.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Prefix_Edit_Distance.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors-Prefix_Edit_Distance.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Process_Olap.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors-Process_Olap.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Read_Frags.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors-Read_Frags.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/computeDiff.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/computeDiff.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Read_Olaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors-Read_Olaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/fixErrors/overlapErrorAdjustment/fixErrors.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapErrorAdjustment/fixErrors.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/fixErrors/overlapErrorAdjustment/correctOverlaps-Correct_Frags.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores overlapErrorAdjustment/correctOverlaps-Correct_Frags.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors-Dump/overlapErrorAdjustment/findErrors-Dump.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/findErrors-Dump.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/correctOverlaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Correct_Frags.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/correctOverlaps-Correct_Frags.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Read_Olaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/correctOverlaps-Read_Olaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Redo_Olaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/correctOverlaps-Redo_Olaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/computeDiff.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/computeDiff.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Prefix_Edit_Distance.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/liboverlap overlapErrorAdjustment/correctOverlaps-Prefix_Edit_Distance.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/bogart.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/bogart.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_AssemblyGraph.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_AssemblyGraph.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_BestOverlapGraph.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_BestOverlapGraph.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_ChunkGraph.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_ChunkGraph.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_DetectSpurs.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_DetectSpurs.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Instrumentation.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Instrumentation.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_FindCircular.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_FindCircular.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Logging.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Logging.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_MarkRepeatReads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_MarkRepeatReads.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_MergeOrphans.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_MergeOrphans.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_OptimizePositions.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_OptimizePositions.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Outputs.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Outputs.C bogart/AS_BAT_Logging.C: In member function 'void logFileInstance::open()': bogart/AS_BAT_Logging.C:115:36: warning: '.num' directive output may be truncated writing 4 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 115 | snprintf(_path, FILENAME_MAX, "%s.num%03d.log", _name, _part); | ^~~~ In member function 'void logFileInstance::open()', inlined from 'void logFileInstance::open()' at bogart/AS_BAT_Logging.C:110:1: bogart/AS_BAT_Logging.C:115:33: note: using the range [-2147483648, 2147483647] for directive argument 115 | snprintf(_path, FILENAME_MAX, "%s.num%03d.log", _name, _part); | ^~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/system.H:23, from bogart/AS_BAT_Logging.C:18: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void logFileInstance::open()' at bogart/AS_BAT_Logging.C:115:11, inlined from 'void logFileInstance::open()' at bogart/AS_BAT_Logging.C:110:1: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4116 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_OverlapCache.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_OverlapCache.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PlaceContains.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_PlaceContains.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PlaceReadUsingOverlaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_PlaceReadUsingOverlaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PopulateUnitig.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_PopulateUnitig.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PromoteToSingleton.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_PromoteToSingleton.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_ReadInfo.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_ReadInfo.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_SetParentAndHang.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_SetParentAndHang.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_SplitDiscontinuous.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_SplitDiscontinuous.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_SplitTig_AtReadEnds.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_SplitTig_AtReadEnds.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_TigVector.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_TigVector.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Unitig.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Unitig.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Unitig_AddRead.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Unitig_AddRead.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Unitig_PlaceReadUsingEdges.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Unitig_PlaceReadUsingEdges.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/layoutReads.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/layoutReads.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Instrumentation.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Instrumentation.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Logging.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Logging.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_OptimizePositions.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_OptimizePositions.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Outputs.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Outputs.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_OverlapCache.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_OverlapCache.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_PlaceContains.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_PlaceContains.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_PlaceReadUsingOverlaps.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_PlaceReadUsingOverlaps.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_ReadInfo.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_ReadInfo.C bogart/AS_BAT_Logging.C: In member function 'void logFileInstance::open()': bogart/AS_BAT_Logging.C:115:36: warning: '.num' directive output may be truncated writing 4 bytes into a region of size between 0 and 4096 [-Wformat-truncation=] 115 | snprintf(_path, FILENAME_MAX, "%s.num%03d.log", _name, _part); | ^~~~ In member function 'void logFileInstance::open()', inlined from 'void logFileInstance::open()' at bogart/AS_BAT_Logging.C:110:1: bogart/AS_BAT_Logging.C:115:33: note: using the range [-2147483648, 2147483647] for directive argument 115 | snprintf(_path, FILENAME_MAX, "%s.num%03d.log", _name, _part); | ^~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:964, from utility/src/utility/types.H:48, from utility/src/utility/system.H:23, from bogart/AS_BAT_Logging.C:18: In function 'int snprintf(char*, size_t, const char*, ...)', inlined from 'void logFileInstance::open()' at bogart/AS_BAT_Logging.C:115:11, inlined from 'void logFileInstance::open()' at bogart/AS_BAT_Logging.C:110:1: /usr/include/aarch64-linux-gnu/bits/stdio2.h:54:35: note: '__builtin___snprintf_chk' output between 12 and 4116 bytes into a destination of size 4096 54 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_SetParentAndHang.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_SetParentAndHang.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_TigVector.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_TigVector.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Unitig.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Unitig.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Unitig_AddRead.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Unitig_AddRead.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Unitig_PlaceReadUsingEdges.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores bogart/AS_BAT_Unitig_PlaceReadUsingEdges.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/utgcns/utgcns/utgcns.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Iutility/src/parasail -Istores -Iutgcns/libpbutgcns -Iutgcns/libboost utgcns/utgcns.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/utgcns/utgcns/stashContains.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Iutility/src/parasail -Istores -Iutgcns/libpbutgcns -Iutgcns/libboost utgcns/stashContains.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/utgcns/utgcns/unitigConsensus.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Iutility/src/parasail -Istores -Iutgcns/libpbutgcns -Iutgcns/libboost utgcns/unitigConsensus.C g++ -o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/alignGFA/gfa/alignGFA.o -c -MD -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/canu-2.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -DHAVE_NEON=1 -pthread -fopenmp -fPIC -DLIBBACKTRACE -I/build/reproducible-path/canu-2.2+dfsg/src -Iutility/src/utility -Istores -IoverlapInCore/libedlib gfa/alignGFA.C cp -pf pipelines/canu.pl /build/reproducible-path/canu-2.2+dfsg/build/bin/canu cp -pf pipelines/canu-time.pl /build/reproducible-path/canu-2.2+dfsg/build/bin/canu-time cp -pf pipelines/draw-tig.pl /build/reproducible-path/canu-2.2+dfsg/build/bin/draw-tig cp -pf pipelines/canu/Consensus.pm /build/reproducible-path/canu-2.2+dfsg/build/lib/site_perl/canu/ cp -pf pipelines/canu/CorrectReads.pm /build/reproducible-path/canu-2.2+dfsg/build/lib/site_perl/canu/ cp -pf pipelines/canu/HaplotypeReads.pm /build/reproducible-path/canu-2.2+dfsg/build/lib/site_perl/canu/ cp -pf pipelines/canu/Configure.pm 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/build/reproducible-path/canu-2.2+dfsg/build/lib/site_perl/canu/ cp -pf pipelines/canu/Report.pm /build/reproducible-path/canu-2.2+dfsg/build/lib/site_perl/canu/ cp -pf pipelines/canu/Unitig.pm /build/reproducible-path/canu-2.2+dfsg/build/lib/site_perl/canu/ ar rv /build/reproducible-path/canu-2.2+dfsg/build/lib/libcanu.a /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/runtime.o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/align-parasail-driver.o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/edlib.o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files.o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files-buffered.o /build/reproducible-path/canu-2.2+dfsg/build/obj/lib/libcanu.a/utility/src/utility/files-compressed.o 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-L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/dumpBlob/stores/dumpBlob.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/ovStoreBuild -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreBuild/stores/ovStoreBuild.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/ovStoreConfig -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreConfig/stores/ovStoreConfig.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/ovStoreBucketizer -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreBucketizer/stores/ovStoreBucketizer.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/ovStoreSorter -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreSorter/stores/ovStoreSorter.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/ovStoreIndexer -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreIndexer/stores/ovStoreIndexer.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/ovStoreDump -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreDump/stores/ovStoreDump.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/ovStoreStats -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/ovStoreStats/stores/ovStoreStats.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/sqStoreCreate -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/sqStoreCreate/stores/sqStoreCreate.o -lcanu -lsnappy -lbacktrace gfa/alignGFA.C: In function 'void dotplot(uint32, bool, char*, uint32, bool, char*)': gfa/alignGFA.C:148:9: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result] 148 | system(Pname); | ~~~~~~^~~~~~~ g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/sqStoreDumpFASTQ -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/sqStoreDumpFASTQ/stores/sqStoreDumpFASTQ.o -lcanu 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/build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylInput.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-count.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-countSimple.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-countThreads.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-histogram.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp-nextMer.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/meryl/meryl/src/meryl/merylOp.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/overlapCheck -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapCheck/overlapCheck/overlapCheck.o -lcanu -lsnappy -lbacktrace g++ -o 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/build/reproducible-path/canu-2.2+dfsg/build/bin/errorEstimate -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/errorEstimate/correction/errorEstimate.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/splitHaplotype -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitHaplotype/haplotyping/splitHaplotype.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/trimReads -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/trimReads/overlapBasedTrimming/trimReads.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/trimReads/overlapBasedTrimming/trimReads-bestEdge.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/trimReads/overlapBasedTrimming/trimReads-largestCovered.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/splitReads -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads-workUnit.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads-subReads.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/splitReads-trimBad.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/adjustNormal.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/splitReads/overlapBasedTrimming/adjustFlipped.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/mergeRanges -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/mergeRanges/overlapBasedTrimming/mergeRanges.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/overlapAlign -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/overlapAlign.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/computeOverlapAlignment.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/trimRead.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/clearRangeFile.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/overlapAlign/overlapAlign/computeAlignments.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/findErrors -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Analyze_Alignment.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Output.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Prefix_Edit_Distance.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Process_Olap.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Read_Frags.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/computeDiff.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors/overlapErrorAdjustment/findErrors-Read_Olaps.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/fixErrors -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/fixErrors/overlapErrorAdjustment/fixErrors.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/fixErrors/overlapErrorAdjustment/correctOverlaps-Correct_Frags.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/findErrors-Dump -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/findErrors-Dump/overlapErrorAdjustment/findErrors-Dump.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/correctOverlaps -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Correct_Frags.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Read_Olaps.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Redo_Olaps.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/computeDiff.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/correctOverlaps/overlapErrorAdjustment/correctOverlaps-Prefix_Edit_Distance.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/bogart -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/bogart.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_AssemblyGraph.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_BestOverlapGraph.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_ChunkGraph.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_DetectSpurs.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Instrumentation.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_FindCircular.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Logging.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_MarkRepeatReads.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_MergeOrphans.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_OptimizePositions.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Outputs.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_OverlapCache.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PlaceContains.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PlaceReadUsingOverlaps.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PopulateUnitig.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_PromoteToSingleton.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_ReadInfo.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_SetParentAndHang.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_SplitDiscontinuous.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_SplitTig_AtReadEnds.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_TigVector.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Unitig.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Unitig_AddRead.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/bogart/bogart/AS_BAT_Unitig_PlaceReadUsingEdges.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/layoutReads -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/layoutReads.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Instrumentation.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Logging.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_OptimizePositions.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Outputs.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_OverlapCache.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_PlaceContains.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_PlaceReadUsingOverlaps.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_ReadInfo.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_SetParentAndHang.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_TigVector.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Unitig.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Unitig_AddRead.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/layoutReads/bogart/AS_BAT_Unitig_PlaceReadUsingEdges.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/alignGFA -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/alignGFA/gfa/alignGFA.o -lcanu -lsnappy -lbacktrace g++ -o /build/reproducible-path/canu-2.2+dfsg/build/bin/utgcns -Wl,-z,relro -Wl,-z,now -pthread -fopenmp -lm -L/build/reproducible-path/canu-2.2+dfsg/build/lib /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/utgcns/utgcns/utgcns.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/utgcns/utgcns/stashContains.o /build/reproducible-path/canu-2.2+dfsg/build/obj/bin/utgcns/utgcns/unitigConsensus.o -lcanu -lsnappy -lbacktrace Success! canu installed in /build/reproducible-path/canu-2.2+dfsg/build/bin/canu make[2]: Leaving directory '/build/reproducible-path/canu-2.2+dfsg/src' find build \ -name OverlapMhap.pm \ -exec sed -i 's#\(\s*my \$javaPath = \).*#\1 "/usr/lib/jvm/java-8-openjdk-arm64/bin/java";#' {} + make[1]: Leaving directory '/build/reproducible-path/canu-2.2+dfsg' dh_auto_test -O--sourcedirectory=src/ create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src/ dh_prep -O--sourcedirectory=src/ dh_auto_install --destdir=debian/canu/ -O--sourcedirectory=src/ debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/canu-2.2+dfsg' dh_install for pl in `grep -Rl '#![[:space:]]*/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#![[:space:]]*/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done rm -Rf debian/canu/build make[1]: Leaving directory '/build/reproducible-path/canu-2.2+dfsg' dh_installdocs -O--sourcedirectory=src/ dh_installchangelogs -O--sourcedirectory=src/ dh_installman -O--sourcedirectory=src/ dh_installsystemduser -O--sourcedirectory=src/ dh_perl -O--sourcedirectory=src/ dh_link -O--sourcedirectory=src/ dh_strip_nondeterminism -O--sourcedirectory=src/ dh_compress -O--sourcedirectory=src/ dh_fixperms -O--sourcedirectory=src/ dh_missing -O--sourcedirectory=src/ dh_dwz -a -O--sourcedirectory=src/ dh_strip -a -O--sourcedirectory=src/ dh_makeshlibs -a -O--sourcedirectory=src/ dh_shlibdeps -a -O--sourcedirectory=src/ dh_installdeb -O--sourcedirectory=src/ dh_gencontrol -O--sourcedirectory=src/ dh_md5sums -O--sourcedirectory=src/ dh_builddeb -O--sourcedirectory=src/ dpkg-deb: building package 'canu' in '../canu_2.2+dfsg-5_arm64.deb'. dpkg-deb: building package 'canu-dbgsym' in '../canu-dbgsym_2.2+dfsg-5_arm64.deb'. dpkg-genbuildinfo --build=binary -O../canu_2.2+dfsg-5_arm64.buildinfo dpkg-genchanges --build=binary -O../canu_2.2+dfsg-5_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/500962/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/500962/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/500962 and its subdirectories I: Current time: Fri Jun 13 03:36:34 +14 2025 I: pbuilder-time-stamp: 1749735394