Diff of the two buildlogs: -- --- b1/build.log 2023-04-29 00:55:40.744089209 +0000 +++ b2/build.log 2023-04-29 01:01:02.977848976 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Apr 28 12:45:54 -12 2023 -I: pbuilder-time-stamp: 1682729154 +I: Current time: Fri May 31 21:18:48 +14 2024 +I: pbuilder-time-stamp: 1717139928 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./megahit_1.2.9.orig.tar.gz] I: copying [./megahit_1.2.9-4.debian.tar.xz] I: Extracting source -gpgv: Signature made Wed Nov 16 08:46:41 2022 -12 +gpgv: Signature made Thu Nov 17 10:46:41 2022 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -29,135 +29,167 @@ dpkg-source: info: applying 2to3.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3646565/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1405549/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 31 21:19 /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/1405549/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1405549/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='amd64' + 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]="15" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='16d51d6496024bfe968226aa8cbb2caa' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='3646565' - PS1='# ' - PS2='> ' + INVOCATION_ID=eca1a2c3c7f447fba176c145814f52fb + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=1405549 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.MwHvKuIC/pbuilderrc_oR5q --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.MwHvKuIC/b1 --logfile b1/build.log megahit_1.2.9-4.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://78.137.99.97:3128' + 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.MwHvKuIC/pbuilderrc_MPBT --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.MwHvKuIC/b2 --logfile b2/build.log --extrapackages usrmerge megahit_1.2.9-4.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://85.184.249.68:3128 I: uname -a - Linux ionos1-amd64 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-0.deb11.6-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.15-1~bpo11+1 (2023-03-16) x86_64 GNU/Linux I: ls -l /bin total 5632 - -rwxr-xr-x 1 root root 1265648 Apr 23 09:23 bash - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 - -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore - -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat - -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp - -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod - -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown - -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp - -rwxr-xr-x 1 root root 125640 Jan 5 01:20 dash - -rwxr-xr-x 1 root root 121904 Sep 20 2022 date - -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd - -rwxr-xr-x 1 root root 102200 Sep 20 2022 df - -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir - -rwxr-xr-x 1 root root 88656 Mar 22 22:02 dmesg - lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname - -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo - -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep - -rwxr-xr-x 1 root root 35664 Sep 20 2022 false - -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep - -rwxr-xr-x 1 root root 85600 Mar 22 22:02 findmnt - -rwsr-xr-x 1 root root 35128 Mar 22 20:35 fusermount - -rwxr-xr-x 1 root root 203152 Jan 24 02:43 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 22680 Dec 19 01:33 hostname - -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln - -rwxr-xr-x 1 root root 53024 Mar 23 00:40 login - -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls - -rwxr-xr-x 1 root root 207168 Mar 22 22:02 lsblk - -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir - -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod - -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp - -rwxr-xr-x 1 root root 59712 Mar 22 22:02 more - -rwsr-xr-x 1 root root 59704 Mar 22 22:02 mount - -rwxr-xr-x 1 root root 18744 Mar 22 22:02 mountpoint - -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv - lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd - lrwxrwxrwx 1 root root 4 Apr 23 09:23 rbash -> bash - -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink - -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm - -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 27560 Nov 2 04:31 run-parts - -rwxr-xr-x 1 root root 126424 Jan 5 07:55 sed - lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash - -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep - -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty - -rwsr-xr-x 1 root root 72000 Mar 22 22:02 su - -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync - -rwxr-xr-x 1 root root 531984 Apr 6 02:25 tar - -rwxr-xr-x 1 root root 14520 Nov 2 04:31 tempfile - -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch - -rwxr-xr-x 1 root root 35664 Sep 20 2022 true - -rwxr-xr-x 1 root root 14568 Mar 22 20:35 ulockmgr_server - -rwsr-xr-x 1 root root 35128 Mar 22 22:02 umount - -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir - -rwxr-xr-x 1 root root 72024 Mar 22 22:02 wdctl - lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat - -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp - -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff - -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep - -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep - -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce - -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep - -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless - -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore - -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew -I: user script /srv/workspace/pbuilder/3646565/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1265648 Apr 24 2023 bash + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzcat + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 14568 Sep 19 2022 bzip2recover + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore + -rwxr-xr-x 1 root root 44016 Sep 21 2022 cat + -rwxr-xr-x 1 root root 68656 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 64496 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 72752 Sep 21 2022 chown + -rwxr-xr-x 1 root root 151152 Sep 21 2022 cp + -rwxr-xr-x 1 root root 125640 Jan 6 2023 dash + -rwxr-xr-x 1 root root 121904 Sep 21 2022 date + -rwxr-xr-x 1 root root 89240 Sep 21 2022 dd + -rwxr-xr-x 1 root root 102200 Sep 21 2022 df + -rwxr-xr-x 1 root root 151344 Sep 21 2022 dir + -rwxr-xr-x 1 root root 88656 Mar 24 2023 dmesg + lrwxrwxrwx 1 root root 8 Dec 20 2022 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Dec 20 2022 domainname -> hostname + -rwxr-xr-x 1 root root 43856 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 2023 egrep + -rwxr-xr-x 1 root root 35664 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 2023 fgrep + -rwxr-xr-x 1 root root 85600 Mar 24 2023 findmnt + -rwsr-xr-x 1 root root 35128 Mar 23 2023 fusermount + -rwxr-xr-x 1 root root 203152 Jan 25 2023 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 98136 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 22680 Dec 20 2022 hostname + -rwxr-xr-x 1 root root 72824 Sep 21 2022 ln + -rwxr-xr-x 1 root root 53024 Mar 24 2023 login + -rwxr-xr-x 1 root root 151344 Sep 21 2022 ls + -rwxr-xr-x 1 root root 207168 Mar 24 2023 lsblk + -rwxr-xr-x 1 root root 97552 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 72912 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 43952 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 59712 Mar 24 2023 more + -rwsr-xr-x 1 root root 59704 Mar 24 2023 mount + -rwxr-xr-x 1 root root 18744 Mar 24 2023 mountpoint + -rwxr-xr-x 1 root root 142968 Sep 21 2022 mv + lrwxrwxrwx 1 root root 8 Dec 20 2022 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 43952 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Apr 24 2023 rbash -> bash + -rwxr-xr-x 1 root root 52112 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 72752 Sep 21 2022 rm + -rwxr-xr-x 1 root root 56240 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 27560 Nov 3 2022 run-parts + -rwxr-xr-x 1 root root 126424 Jan 6 2023 sed + lrwxrwxrwx 1 root root 9 May 31 21:19 sh -> /bin/bash + -rwxr-xr-x 1 root root 43888 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 85008 Sep 21 2022 stty + -rwsr-xr-x 1 root root 72000 Mar 24 2023 su + -rwxr-xr-x 1 root root 39824 Sep 21 2022 sync + -rwxr-xr-x 1 root root 531984 Apr 7 2023 tar + -rwxr-xr-x 1 root root 14520 Nov 3 2022 tempfile + -rwxr-xr-x 1 root root 109616 Sep 21 2022 touch + -rwxr-xr-x 1 root root 35664 Sep 21 2022 true + -rwxr-xr-x 1 root root 14568 Mar 23 2023 ulockmgr_server + -rwsr-xr-x 1 root root 35128 Mar 24 2023 umount + -rwxr-xr-x 1 root root 43888 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 151344 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 72024 Mar 24 2023 wdctl + lrwxrwxrwx 1 root root 8 Dec 20 2022 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/1405549/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -264,7 +296,7 @@ Get: 61 http://deb.debian.org/debian bookworm/main amd64 dh-python all 5.20230130 [104 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 python3-all amd64 3.11.2-1+b1 [1056 B] Get: 63 http://deb.debian.org/debian bookworm/main amd64 zlib1g-dev amd64 1:1.2.13.dfsg-1 [916 kB] -Fetched 39.1 MB in 1s (30.0 MB/s) +Fetched 39.1 MB in 1s (62.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19596 files and directories currently installed.) @@ -532,8 +564,19 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/megahit-1.2.9/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../megahit_1.2.9-4_source.changes +I: user script /srv/workspace/pbuilder/1405549/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +removed '/etc/unsupported-skip-usrmerge-conversion' +The system has been successfully converted. +I: user script /srv/workspace/pbuilder/1405549/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/megahit-1.2.9/ && 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 > ../megahit_1.2.9-4_source.changes dpkg-buildpackage: info: source package megahit dpkg-buildpackage: info: source version 1.2.9-4 dpkg-buildpackage: info: source distribution unstable @@ -590,7 +633,7 @@ -- Build files have been written to: /build/megahit-1.2.9/obj-x86_64-linux-gnu dh_auto_build - cd obj-x86_64-linux-gnu && make -j15 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/megahit-1.2.9 -B/build/megahit-1.2.9/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles /build/megahit-1.2.9/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -599,114 +642,116 @@ make -f CMakeFiles/megahit_core.dir/build.make CMakeFiles/megahit_core.dir/depend make -f CMakeFiles/megahit_core_popcnt.dir/build.make CMakeFiles/megahit_core_popcnt.dir/depend make -f CMakeFiles/megahit_core_no_hw_accel.dir/build.make CMakeFiles/megahit_core_no_hw_accel.dir/depend +make -f CMakeFiles/megahit_toolkit.dir/build.make CMakeFiles/megahit_toolkit.dir/depend make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' cd /build/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/megahit-1.2.9 /build/megahit-1.2.9 /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core.dir/DependInfo.cmake --color= -make -f CMakeFiles/megahit_toolkit.dir/build.make CMakeFiles/megahit_toolkit.dir/depend make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -cd /build/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/megahit-1.2.9 /build/megahit-1.2.9 /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core_popcnt.dir/DependInfo.cmake --color= +cd /build/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/megahit-1.2.9 /build/megahit-1.2.9 /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_toolkit.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' cd /build/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/megahit-1.2.9 /build/megahit-1.2.9 /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core_no_hw_accel.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -cd /build/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/megahit-1.2.9 /build/megahit-1.2.9 /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_toolkit.dir/DependInfo.cmake --color= +cd /build/megahit-1.2.9/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/megahit-1.2.9 /build/megahit-1.2.9 /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu /build/megahit-1.2.9/obj-x86_64-linux-gnu/CMakeFiles/megahit_core_popcnt.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' make -f CMakeFiles/megahit_core.dir/build.make CMakeFiles/megahit_core.dir/build -make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -make -f CMakeFiles/megahit_core_popcnt.dir/build.make CMakeFiles/megahit_core_popcnt.dir/build make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' +make -f CMakeFiles/megahit_toolkit.dir/build.make CMakeFiles/megahit_toolkit.dir/build make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' make -f CMakeFiles/megahit_core_no_hw_accel.dir/build.make CMakeFiles/megahit_core_no_hw_accel.dir/build make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -make -f CMakeFiles/megahit_toolkit.dir/build.make CMakeFiles/megahit_toolkit.dir/build +/usr/bin/cmake -E create_symlink megahit_core_no_hw_accel megahit_toolkit +make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' +make -f CMakeFiles/megahit_core_popcnt.dir/build.make CMakeFiles/megahit_core_popcnt.dir/build make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -/usr/bin/cmake -E create_symlink megahit_core_no_hw_accel megahit_toolkit +make[3]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' [ 0%] Building CXX object CMakeFiles/megahit_core.dir/src/main.cpp.o -[ 1%] Building CXX object CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o +[ 1%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o +[ 2%] Building CXX object CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main.cpp.o -MF CMakeFiles/megahit_core.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main.cpp.o -c /build/megahit-1.2.9/src/main.cpp +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -c /build/megahit-1.2.9/src/main.cpp /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o -c /build/megahit-1.2.9/src/main_assemble.cpp -[ 2%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o [ 3%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o -c /build/megahit-1.2.9/src/main_buildlib.cpp +[ 4%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o -c /build/megahit-1.2.9/src/main.cpp -[ 4%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o -[ 5%] Building CXX object CMakeFiles/megahit_core.dir/src/main_buildlib.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o -c /build/megahit-1.2.9/src/main_assemble.cpp -[ 6%] Building CXX object CMakeFiles/megahit_core.dir/src/main_iterate.cpp.o +[ 6%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o +[ 5%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o -c /build/megahit-1.2.9/src/main_assemble.cpp +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o -c /build/megahit-1.2.9/src/main_buildlib.cpp +[ 7%] Building CXX object CMakeFiles/megahit_core.dir/src/main_buildlib.cpp.o +[ 7%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_local_assemble.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_buildlib.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_buildlib.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_buildlib.cpp.o -c /build/megahit-1.2.9/src/main_buildlib.cpp -[ 7%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o -c /build/megahit-1.2.9/src/main.cpp -[ 8%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o -[ 9%] Building CXX object CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o +[ 8%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_iterate.cpp.o +[ 8%] Built target megahit_toolkit +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o -c /build/megahit-1.2.9/src/main_assemble.cpp +[ 9%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o +[ 10%] Building CXX object CMakeFiles/megahit_core.dir/src/main_iterate.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o -c /build/megahit-1.2.9/src/main_iterate.cpp +[ 12%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o +[ 12%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_local_assemble.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_iterate.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_iterate.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_iterate.cpp.o -c /build/megahit-1.2.9/src/main_iterate.cpp -make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -[ 10%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o -c /build/megahit-1.2.9/src/main_buildlib.cpp -[ 11%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_iterate.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main_iterate.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main_iterate.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_iterate.cpp.o -c /build/megahit-1.2.9/src/main_iterate.cpp -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o -c /build/megahit-1.2.9/src/main_assemble.cpp -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o -c /build/megahit-1.2.9/src/main_local_assemble.cpp -[ 11%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_local_assemble.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main_local_assemble.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main_local_assemble.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_local_assemble.cpp.o -c /build/megahit-1.2.9/src/main_local_assemble.cpp -[ 12%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o -c /build/megahit-1.2.9/src/main_iterate.cpp -[ 12%] Built target megahit_toolkit -[ 13%] Building CXX object CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o -c /build/megahit-1.2.9/src/main_sdbg_build.cpp -[ 14%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_sdbg_build.cpp.o +[ 13%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/main_sdbg_build.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/main_sdbg_build.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/main_sdbg_build.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_sdbg_build.cpp.o -c /build/megahit-1.2.9/src/main_sdbg_build.cpp -[ 15%] Building CXX object CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o -MF CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o.d -o CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o -c /build/megahit-1.2.9/src/utils/options_description.cpp -[ 16%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_local_assemble.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o -c /build/megahit-1.2.9/src/main_buildlib.cpp /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_local_assemble.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_local_assemble.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_local_assemble.cpp.o -c /build/megahit-1.2.9/src/main_local_assemble.cpp -[ 17%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/utils/options_description.cpp.o +[ 14%] Building CXX object CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o -c /build/megahit-1.2.9/src/main_local_assemble.cpp +[ 15%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/utils/options_description.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/utils/options_description.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/utils/options_description.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/utils/options_description.cpp.o -c /build/megahit-1.2.9/src/utils/options_description.cpp -[ 18%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/bubble_remover.cpp -[ 19%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_sdbg_build.cpp.o +[ 16%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/main_sdbg_build.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/main_sdbg_build.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/main_sdbg_build.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/main_sdbg_build.cpp.o -c /build/megahit-1.2.9/src/main_sdbg_build.cpp -[ 20%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o -c /build/megahit-1.2.9/src/assembly/contig_output.cpp -[ 21%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/low_depth_remover.cpp -[ 22%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/bubble_remover.cpp.o +[ 17%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o -c /build/megahit-1.2.9/src/utils/options_description.cpp +[ 18%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/bubble_remover.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/bubble_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/bubble_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/bubble_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/bubble_remover.cpp -[ 23%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o +[ 19%] Building CXX object CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o -MF CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o.d -o CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o -c /build/megahit-1.2.9/src/main_sdbg_build.cpp +[ 20%] Building CXX object CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o -MF CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o.d -o CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o -c /build/megahit-1.2.9/src/utils/options_description.cpp +[ 21%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/bubble_remover.cpp +[ 22%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o -c /build/megahit-1.2.9/src/assembly/contig_output.cpp -[ 24%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o -c /build/megahit-1.2.9/src/utils/options_description.cpp -[ 25%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/bubble_remover.cpp -[ 26%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o -c /build/megahit-1.2.9/src/assembly/sdbg_pruning.cpp -[ 27%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o +[ 23%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/low_depth_remover.cpp -[ 28%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o +[ 24%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/bubble_remover.cpp +[ 25%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o -c /build/megahit-1.2.9/src/assembly/contig_output.cpp -[ 29%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/tip_remover.cpp -[ 30%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o -c /build/megahit-1.2.9/src/assembly/unitig_graph.cpp -[ 30%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/weak_link_remover.cpp -[ 31%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o +[ 26%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o -c /build/megahit-1.2.9/src/assembly/contig_output.cpp +[ 27%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o -c /build/megahit-1.2.9/src/assembly/sdbg_pruning.cpp -[ 31%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/low_depth_remover.cpp -[ 32%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o +[ 28%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/low_depth_remover.cpp +[ 29%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/tip_remover.cpp -[ 33%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o +[ 29%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/low_depth_remover.cpp +[ 30%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o -c /build/megahit-1.2.9/src/assembly/unitig_graph.cpp -[ 34%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph.cpp -[ 35%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/weak_link_remover.cpp -[ 36%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/sdbg_pruning.cpp.o +[ 31%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/sdbg_pruning.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/sdbg_pruning.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/sdbg_pruning.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/sdbg_pruning.cpp.o -c /build/megahit-1.2.9/src/assembly/sdbg_pruning.cpp -[ 37%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp -[ 38%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o +[ 32%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/weak_link_remover.cpp +[ 33%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/tip_remover.cpp +[ 34%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o -c /build/megahit-1.2.9/src/assembly/sdbg_pruning.cpp +[ 35%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/tip_remover.cpp +[ 36%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -c /build/megahit-1.2.9/src/assembly/unitig_graph.cpp +[ 37%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o -c /build/megahit-1.2.9/src/assembly/unitig_graph.cpp +[ 38%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph.cpp +[ 39%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp +[ 39%] Building CXX object CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/weak_link_remover.cpp In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/megahit-1.2.9/src/idba/contig_graph.cpp:9: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] @@ -766,12 +811,8 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 39%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -c /build/megahit-1.2.9/src/idba/hash_graph.cpp -[ 40%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -c /build/megahit-1.2.9/src/idba/sequence.cpp -[ 41%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph.cpp +[ 40%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/weak_link_remover.cpp In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: @@ -832,8 +873,10 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 42%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o -c /build/megahit-1.2.9/src/assembly/unitig_graph.cpp +[ 41%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o -c /build/megahit-1.2.9/src/idba/hash_graph.cpp +[ 42%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -c /build/megahit-1.2.9/src/idba/sequence.cpp In file included from /build/megahit-1.2.9/src/idba/hash_table.h:22, from /build/megahit-1.2.9/src/idba/hash_graph.h:20, from /build/megahit-1.2.9/src/idba/hash_graph.cpp:9: @@ -894,8 +937,18 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 43%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_meta.cpp +[ 43%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph.cpp +[ 44%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph.cpp +[ 44%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_meta.cpp +[ 45%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp +[ 46%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp +[ 47%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o -c /build/megahit-1.2.9/src/idba/hash_graph.cpp In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/megahit-1.2.9/src/idba/contig_graph.cpp:9: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] @@ -955,23 +1008,16 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 44%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp -[ 45%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp -[ 46%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o -c /build/megahit-1.2.9/src/idba/hash_graph.cpp -[ 47%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o -c /build/megahit-1.2.9/src/assembly/weak_link_remover.cpp -In file included from /build/megahit-1.2.9/src/idba/hash_table.h:22, - from /build/megahit-1.2.9/src/idba/hash_graph.h:20, - from /build/megahit-1.2.9/src/idba/hash_graph.cpp:9: +[ 48%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp +In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, + from /build/megahit-1.2.9/src/idba/contig_graph.cpp:9: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/12/bits/refwrap.h:39, from /usr/include/c++/12/deque:65, - from /build/megahit-1.2.9/src/idba/hash_graph.h:13: + from /build/megahit-1.2.9/src/idba/contig_graph.h:14: /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1023,15 +1069,15 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, - from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: +In file included from /build/megahit-1.2.9/src/idba/hash_table.h:22, + from /build/megahit-1.2.9/src/idba/hash_graph.h:20, + from /build/megahit-1.2.9/src/idba/hash_graph.cpp:9: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/12/bits/refwrap.h:39, - from /usr/include/c++/12/vector:66, - from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: + from /usr/include/c++/12/deque:65, + from /build/megahit-1.2.9/src/idba/hash_graph.h:13: /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1083,22 +1129,15 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 48%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_writer.cpp -[ 49%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph.cpp -[ 50%] Building CXX object CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -c /build/megahit-1.2.9/src/localasm/hash_mapper.cpp -[ 51%] Building CXX object CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -c /build/megahit-1.2.9/src/localasm/local_assemble.cpp In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/megahit-1.2.9/src/idba/contig_graph.cpp:9: + from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, + from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/12/bits/refwrap.h:39, - from /usr/include/c++/12/deque:65, - from /build/megahit-1.2.9/src/idba/contig_graph.h:14: + from /usr/include/c++/12/vector:66, + from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1150,20 +1189,19 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 52%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o -c /build/megahit-1.2.9/src/idba/sequence.cpp -[ 53%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/fastx_reader.cpp -[ 54%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp +[ 49%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o -c /build/megahit-1.2.9/src/idba/hash_graph.cpp +[ 50%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_writer.cpp In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/megahit-1.2.9/src/localasm/local_assemble.cpp:10: + from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, + from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/12/string:48, - from /build/megahit-1.2.9/src/localasm/local_assemble.h:25, - from /build/megahit-1.2.9/src/localasm/local_assemble.cpp:1: +In file included from /usr/include/c++/12/bits/refwrap.h:39, + from /usr/include/c++/12/vector:66, + from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1215,21 +1253,15 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 55%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o -c /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp -[ 55%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_meta.cpp -[ 56%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp -In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, - from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:15, - from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.cpp:9: +In file included from /build/megahit-1.2.9/src/idba/hash_table.h:22, + from /build/megahit-1.2.9/src/idba/hash_graph.h:20, + from /build/megahit-1.2.9/src/idba/hash_graph.cpp:9: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/12/bits/refwrap.h:39, - from /usr/include/c++/12/vector:66, - from /build/megahit-1.2.9/src/idba/contig_graph_branch_group.h:13: + from /usr/include/c++/12/deque:65, + from /build/megahit-1.2.9/src/idba/hash_graph.h:13: /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1281,31 +1313,28 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 57%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -c /build/megahit-1.2.9/src/sequence/io/sequence_lib.cpp -[ 58%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -c /build/megahit-1.2.9/src/sorting/base_engine.cpp -[ 58%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o -c /build/megahit-1.2.9/src/sorting/kmer_counter.cpp -[ 59%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_writer.cpp -[ 60%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o +[ 51%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o -c /build/megahit-1.2.9/src/localasm/hash_mapper.cpp -[ 61%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o -c /build/megahit-1.2.9/src/idba/hash_graph.cpp -[ 62%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o +[ 52%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o -c /build/megahit-1.2.9/src/localasm/local_assemble.cpp -[ 63%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o -c /build/megahit-1.2.9/src/sorting/kmsort_selector.cpp -In file included from /build/megahit-1.2.9/src/idba/hash_table.h:22, - from /build/megahit-1.2.9/src/idba/hash_graph.h:20, - from /build/megahit-1.2.9/src/idba/hash_graph.cpp:9: +[ 53%] Building CXX object CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o -c /build/megahit-1.2.9/src/idba/sequence.cpp +[ 54%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/fastx_reader.cpp +[ 55%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp +[ 56%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_meta.cpp +[ 57%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -c /build/megahit-1.2.9/src/idba/sequence.cpp +In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, + from /build/megahit-1.2.9/src/localasm/local_assemble.cpp:10: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 19 | struct Hash : public std::unary_function { | ^~~~~~~~~~~~~~ -In file included from /usr/include/c++/12/bits/refwrap.h:39, - from /usr/include/c++/12/deque:65, - from /build/megahit-1.2.9/src/idba/hash_graph.h:13: +In file included from /usr/include/c++/12/string:48, + from /build/megahit-1.2.9/src/localasm/local_assemble.h:25, + from /build/megahit-1.2.9/src/localasm/local_assemble.cpp:1: /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ @@ -1357,14 +1386,36 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 64%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/fastx_reader.cpp -[ 65%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp -[ 66%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o -c /build/megahit-1.2.9/src/idba/sequence.cpp -[ 67%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o +[ 58%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp +[ 59%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o -c /build/megahit-1.2.9/src/sequence/io/sequence_lib.cpp +[ 60%] Building CXX object CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_writer.cpp +[ 61%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_meta.cpp +[ 62%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp +[ 63%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o -c /build/megahit-1.2.9/src/sorting/base_engine.cpp +[ 64%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -c /build/megahit-1.2.9/src/sorting/kmer_counter.cpp +[ 65%] Building CXX object CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o -c /build/megahit-1.2.9/src/localasm/hash_mapper.cpp +[ 66%] Building CXX object CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o -c /build/megahit-1.2.9/src/localasm/local_assemble.cpp +[ 67%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_writer.cpp +[ 68%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -c /build/megahit-1.2.9/src/sorting/kmsort_selector.cpp +[ 69%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -c /build/megahit-1.2.9/src/localasm/hash_mapper.cpp +[ 69%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -c /build/megahit-1.2.9/src/localasm/local_assemble.cpp +[ 70%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/fastx_reader.cpp +[ 71%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/megahit-1.2.9/src/localasm/local_assemble.cpp:10: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] @@ -1424,110 +1475,8 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ -[ 68%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp -[ 69%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_raw_content.cpp -[ 70%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o -c /build/megahit-1.2.9/src/sequence/io/sequence_lib.cpp -[ 71%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o -c /build/megahit-1.2.9/src/sorting/base_engine.cpp -[ 72%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp -[ 73%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp -[ 74%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o -c /build/megahit-1.2.9/src/sdbg/sdbg_writer.cpp -[ 75%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o -c /build/megahit-1.2.9/src/sorting/kmer_counter.cpp -[ 76%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o -c /build/megahit-1.2.9/src/localasm/hash_mapper.cpp -[ 76%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o -c /build/megahit-1.2.9/src/localasm/local_assemble.cpp -In file included from /build/megahit-1.2.9/src/definitions.h:48, - from /build/megahit-1.2.9/src/main_iterate.cpp:35: -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:48:27: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ -[ 77%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o +[ 72%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/fastx_reader.cpp -In file included from /build/megahit-1.2.9/src/definitions.h:48, - from /build/megahit-1.2.9/src/main_iterate.cpp:35: -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:48:27: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ -[ 78%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o -c /build/megahit-1.2.9/src/tools/contigs_to_fastg.cpp -[ 79%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o -c /build/megahit-1.2.9/src/tools/filter_by_len.cpp -[ 80%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o -c /build/megahit-1.2.9/src/sorting/kmsort_selector.cpp -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ -In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: -/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] - 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); - | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: -/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ - 219 | word_type data_[kNumWords]; - | ^~~~~ In file included from /build/megahit-1.2.9/src/idba/contig_graph.h:22, from /build/megahit-1.2.9/src/localasm/local_assemble.cpp:10: /build/megahit-1.2.9/src/idba/hash.h:19:27: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] @@ -1587,57 +1536,73 @@ /usr/include/c++/12/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ +[ 73%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp +[ 74%] Building CXX object CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o -c /build/megahit-1.2.9/src/sequence/io/sequence_lib.cpp +[ 75%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp +[ 76%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o -c /build/megahit-1.2.9/src/sorting/base_engine.cpp +[ 77%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -c /build/megahit-1.2.9/src/sequence/io/sequence_lib.cpp +[ 78%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp +[ 78%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o -c /build/megahit-1.2.9/src/sorting/kmer_counter.cpp +[ 78%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp +[ 79%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -c /build/megahit-1.2.9/src/sorting/base_engine.cpp +In file included from /build/megahit-1.2.9/src/definitions.h:48, + from /build/megahit-1.2.9/src/main_iterate.cpp:35: In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:48:27: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ +[ 80%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o -c /build/megahit-1.2.9/src/sorting/kmer_counter.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 81%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp -In file included from /build/megahit-1.2.9/src/definitions.h:48, - from /build/megahit-1.2.9/src/main_iterate.cpp:35: In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:48:27: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 82%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o -c /build/megahit-1.2.9/src/sequence/io/paired_fastx_reader.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] @@ -1656,6 +1621,8 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ +[ 81%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -c /build/megahit-1.2.9/src/tools/contigs_to_fastg.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] @@ -1674,111 +1641,117 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ +In file included from /build/megahit-1.2.9/src/definitions.h:48, + from /build/megahit-1.2.9/src/main_iterate.cpp:35: In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:48:27: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ +[ 82%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o -c /build/megahit-1.2.9/src/tools/filter_by_len.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ +In file included from /build/megahit-1.2.9/src/definitions.h:48, + from /build/megahit-1.2.9/src/main_iterate.cpp:35: In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:48:27: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZN16ContigFlankIndexI4KmerILj1EmEE16FeedBatchContigsER15SequencePackageIjERKSt6vectorIfSaIfEE._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ @@ -1800,84 +1773,108 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 83%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o -c /build/megahit-1.2.9/src/sequence/io/sequence_lib.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 84%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp +[ 83%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o -c /build/megahit-1.2.9/src/sorting/kmsort_selector.cpp +[ 84%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o -c /build/megahit-1.2.9/src/sorting/kmsort_selector.cpp +[ 85%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj16EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 85%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -c /build/megahit-1.2.9/src/tools/read_stat.cpp +[ 86%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o -c /build/megahit-1.2.9/src/tools/read_stat.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, - inlined from ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); | ~~~~~^ -/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj4EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ +[ 87%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp +[ 88%] Building CXX object CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj7EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] @@ -1896,8 +1893,28 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 85%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp +[ 89%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ +[ 90%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o -c /build/megahit-1.2.9/src/tools/contigs_to_fastg.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] @@ -1916,12 +1933,24 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 86%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o -c /build/megahit-1.2.9/src/tools/contigs_to_fastg.cpp -[ 87%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o -c /build/megahit-1.2.9/src/tools/filter_by_len.cpp -[ 88%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o -c /build/megahit-1.2.9/src/sorting/base_engine.cpp +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj5EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] @@ -1941,6 +1970,28 @@ 219 | word_type data_[kNumWords]; | ^~~~~ In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, + inlined from ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:186:35: +/build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] + 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); + | ~~~~~^ +/build/megahit-1.2.9/src/sequence/kmer.h: In function ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’: +/build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ + 219 | word_type data_[kNumWords]; + | ^~~~~ +[ 91%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp +[ 92%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp +In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj2EmEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] 142 | data_[i] = (data_[i] << 2) | (data_[i + 1] >> (kBitsPerWord - 2)); @@ -1958,6 +2009,8 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ +[ 93%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o -c /build/megahit-1.2.9/src/tools/contigs_to_fastg.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj3EjEE22FindNextKmersFromReadsI13KmerCollectorIS0_ILj1EmEEEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] @@ -1976,8 +2029,6 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 89%] Building CXX object CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -std=gnu++11 -MD -MT CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o -MF CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o.d -o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o -c /build/megahit-1.2.9/src/tools/read_stat.cpp In member function ‘void Kmer::ShiftAppend(uint8_t, unsigned int) [with unsigned int NWords = 1; TWord = long unsigned int]’, inlined from ‘_ZNK16ContigFlankIndexI4KmerILj1EmEE22FindNextKmersFromReadsI13KmerCollectorIS1_EEEmRK15SequencePackageIjEPT_._omp_fn.0’ at /build/megahit-1.2.9/src/iterate/contig_flank_index.h:196:35: /build/megahit-1.2.9/src/sequence/kmer.h:142:42: warning: array subscript 1 is above array bounds of ‘Kmer<1, long unsigned int>::word_type [1]’ {aka ‘long unsigned int [1]’} [-Warray-bounds] @@ -1996,32 +2047,24 @@ /build/megahit-1.2.9/src/sequence/kmer.h:219:13: note: while referencing ‘Kmer<1, long unsigned int>::data_’ 219 | word_type data_[kNumWords]; | ^~~~~ -[ 90%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o -c /build/megahit-1.2.9/src/sorting/kmer_counter.cpp -[ 91%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o -c /build/megahit-1.2.9/src/sorting/kmsort_selector.cpp -[ 92%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s1.cpp -[ 93%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o -c /build/megahit-1.2.9/src/sorting/read_to_sdbg_s2.cpp -[ 94%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o -c /build/megahit-1.2.9/src/sorting/seq_to_sdbg.cpp -[ 95%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o -/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o -c /build/megahit-1.2.9/src/tools/contigs_to_fastg.cpp +[ 94%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o -c /build/megahit-1.2.9/src/tools/filter_by_len.cpp +[ 95%] Building CXX object CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o +/usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mbmi2 -DUSE_BMI2 -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -MF CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o.d -o CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -c /build/megahit-1.2.9/src/tools/read_stat.cpp [ 96%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/tools/filter_by_len.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/tools/filter_by_len.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/tools/filter_by_len.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/tools/filter_by_len.cpp.o -c /build/megahit-1.2.9/src/tools/filter_by_len.cpp [ 97%] Building CXX object CMakeFiles/megahit_core_popcnt.dir/src/tools/read_stat.cpp.o /usr/bin/c++ -I/build/megahit-1.2.9/src -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -mpopcnt -std=gnu++11 -MD -MT CMakeFiles/megahit_core_popcnt.dir/src/tools/read_stat.cpp.o -MF CMakeFiles/megahit_core_popcnt.dir/src/tools/read_stat.cpp.o.d -o CMakeFiles/megahit_core_popcnt.dir/src/tools/read_stat.cpp.o -c /build/megahit-1.2.9/src/tools/read_stat.cpp -[ 98%] Linking CXX executable megahit_core -/usr/bin/cmake -E cmake_link_script CMakeFiles/megahit_core.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/megahit_core.dir/src/main.cpp.o CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o CMakeFiles/megahit_core.dir/src/main_buildlib.cpp.o CMakeFiles/megahit_core.dir/src/main_iterate.cpp.o CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -o megahit_core -lz -make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -[ 98%] Built target megahit_core -[ 99%] Linking CXX executable megahit_core_no_hw_accel +[ 98%] Linking CXX executable megahit_core_no_hw_accel /usr/bin/cmake -E cmake_link_script CMakeFiles/megahit_core_no_hw_accel.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/megahit_core_no_hw_accel.dir/src/main.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_assemble.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_buildlib.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_iterate.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_local_assemble.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/main_sdbg_build.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/utils/options_description.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/bubble_remover.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/contig_output.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/low_depth_remover.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/sdbg_pruning.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/tip_remover.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/unitig_graph.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/assembly/weak_link_remover.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/contig_graph_branch_group.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/hash_graph.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/idba/sequence.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_meta.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_raw_content.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sdbg/sdbg_writer.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/hash_mapper.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/localasm/local_assemble.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/fastx_reader.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/paired_fastx_reader.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sequence/io/sequence_lib.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/base_engine.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmer_counter.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/kmsort_selector.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s1.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/read_to_sdbg_s2.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/sorting/seq_to_sdbg.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/contigs_to_fastg.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/filter_by_len.cpp.o CMakeFiles/megahit_core_no_hw_accel.dir/src/tools/read_stat.cpp.o -o megahit_core_no_hw_accel -lz make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' -[ 99%] Built target megahit_core_no_hw_accel +[ 98%] Built target megahit_core_no_hw_accel +[ 99%] Linking CXX executable megahit_core +/usr/bin/cmake -E cmake_link_script CMakeFiles/megahit_core.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/megahit_core.dir/src/main.cpp.o CMakeFiles/megahit_core.dir/src/main_assemble.cpp.o CMakeFiles/megahit_core.dir/src/main_buildlib.cpp.o CMakeFiles/megahit_core.dir/src/main_iterate.cpp.o CMakeFiles/megahit_core.dir/src/main_local_assemble.cpp.o CMakeFiles/megahit_core.dir/src/main_sdbg_build.cpp.o CMakeFiles/megahit_core.dir/src/utils/options_description.cpp.o CMakeFiles/megahit_core.dir/src/assembly/bubble_remover.cpp.o CMakeFiles/megahit_core.dir/src/assembly/contig_output.cpp.o CMakeFiles/megahit_core.dir/src/assembly/low_depth_remover.cpp.o CMakeFiles/megahit_core.dir/src/assembly/sdbg_pruning.cpp.o CMakeFiles/megahit_core.dir/src/assembly/tip_remover.cpp.o CMakeFiles/megahit_core.dir/src/assembly/unitig_graph.cpp.o CMakeFiles/megahit_core.dir/src/assembly/weak_link_remover.cpp.o CMakeFiles/megahit_core.dir/src/idba/contig_graph.cpp.o CMakeFiles/megahit_core.dir/src/idba/contig_graph_branch_group.cpp.o CMakeFiles/megahit_core.dir/src/idba/hash_graph.cpp.o CMakeFiles/megahit_core.dir/src/idba/sequence.cpp.o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_meta.cpp.o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_raw_content.cpp.o CMakeFiles/megahit_core.dir/src/sdbg/sdbg_writer.cpp.o CMakeFiles/megahit_core.dir/src/localasm/hash_mapper.cpp.o CMakeFiles/megahit_core.dir/src/localasm/local_assemble.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/fastx_reader.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/paired_fastx_reader.cpp.o CMakeFiles/megahit_core.dir/src/sequence/io/sequence_lib.cpp.o CMakeFiles/megahit_core.dir/src/sorting/base_engine.cpp.o CMakeFiles/megahit_core.dir/src/sorting/kmer_counter.cpp.o CMakeFiles/megahit_core.dir/src/sorting/kmsort_selector.cpp.o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s1.cpp.o CMakeFiles/megahit_core.dir/src/sorting/read_to_sdbg_s2.cpp.o CMakeFiles/megahit_core.dir/src/sorting/seq_to_sdbg.cpp.o CMakeFiles/megahit_core.dir/src/tools/contigs_to_fastg.cpp.o CMakeFiles/megahit_core.dir/src/tools/filter_by_len.cpp.o CMakeFiles/megahit_core.dir/src/tools/read_stat.cpp.o -o megahit_core -lz +make[3]: Leaving directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' +[ 99%] Built target megahit_core [100%] Linking CXX executable megahit_core_popcnt /usr/bin/cmake -E cmake_link_script CMakeFiles/megahit_core_popcnt.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/megahit-1.2.9=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DXXH_INLINE_ALL -ftemplate-depth=3000 -Wall -Wno-unused-function -fprefetch-loop-arrays -funroll-loops -D__XROOT__='"/build/megahit-1.2.9/src"' -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/megahit_core_popcnt.dir/src/main.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/main_assemble.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/main_buildlib.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/main_iterate.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/main_local_assemble.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/main_sdbg_build.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/utils/options_description.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/assembly/bubble_remover.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/assembly/contig_output.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/assembly/low_depth_remover.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/assembly/sdbg_pruning.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/assembly/tip_remover.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/assembly/unitig_graph.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/assembly/weak_link_remover.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/idba/contig_graph_branch_group.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/idba/hash_graph.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/idba/sequence.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_meta.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_raw_content.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sdbg/sdbg_writer.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/localasm/hash_mapper.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/localasm/local_assemble.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/fastx_reader.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/paired_fastx_reader.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sequence/io/sequence_lib.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sorting/base_engine.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmer_counter.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sorting/kmsort_selector.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s1.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sorting/read_to_sdbg_s2.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/sorting/seq_to_sdbg.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/tools/contigs_to_fastg.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/tools/filter_by_len.cpp.o CMakeFiles/megahit_core_popcnt.dir/src/tools/read_stat.cpp.o -o megahit_core_popcnt -lz @@ -2043,7 +2086,7 @@ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/megahit/ - cd obj-x86_64-linux-gnu && make -j15 install DESTDIR=/build/megahit-1.2.9/debian/megahit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/megahit-1.2.9/debian/megahit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/megahit-1.2.9/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/megahit-1.2.9 -B/build/megahit-1.2.9/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -2092,8 +2135,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'megahit' in '../megahit_1.2.9-4_amd64.deb'. dpkg-deb: building package 'megahit-dbgsym' in '../megahit-dbgsym_1.2.9-4_amd64.deb'. +dpkg-deb: building package 'megahit' in '../megahit_1.2.9-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../megahit_1.2.9-4_amd64.buildinfo dpkg-genchanges --build=binary -O../megahit_1.2.9-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2101,12 +2144,14 @@ 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/1405549/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1405549/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/3646565 and its subdirectories -I: Current time: Fri Apr 28 12:55:40 -12 2023 -I: pbuilder-time-stamp: 1682729740 +I: removing directory /srv/workspace/pbuilder/1405549 and its subdirectories +I: Current time: Fri May 31 21:24:04 +14 2024 +I: pbuilder-time-stamp: 1717140244