sbuild (Debian sbuild) 0.85.0 (04 January 2023) on debian-ci-siliconvalley +==============================================================================+ | rna-star 2.7.11b+dfsg-2 (arm64) Wed, 13 Nov 2024 06:58:03 +0000 | +==============================================================================+ Package: rna-star Version: 2.7.11b+dfsg-2 Source Version: 2.7.11b+dfsg-2 Distribution: unstable Machine Architecture: amd64 Host Architecture: arm64 Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-b19ed71c-4144-4129-80b3-4f46c5ae15da' with '<>' I: NOTICE: Log filtering will replace 'build/rna-star-REwKzV/resolver-lQ0Kdh' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://localhost:3142/debian unstable InRelease [202 kB] Get:2 http://localhost:3142/debian unstable/main Sources [10.9 MB] Get:3 http://localhost:3142/debian unstable/contrib Sources [62.1 kB] Get:4 http://localhost:3142/debian unstable/non-free-firmware Sources [6812 B] Get:5 http://localhost:3142/debian unstable/non-free Sources [83.5 kB] Get:6 http://localhost:3142/debian unstable/main arm64 Packages [9945 kB] Get:7 http://localhost:3142/debian unstable/main amd64 Packages [10.0 MB] Fetched 31.2 MB in 3s (11.3 MB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt base-passwd bash bsdutils coreutils cpp-14 cpp-14-x86-64-linux-gnu e2fsprogs g++-14 g++-14-x86-64-linux-gnu gcc-14 gcc-14-base gcc-14-x86-64-linux-gnu gpgv libacl1 libapt-pkg6.0t64 libasan8 libatomic1 libaudit-common libaudit1 libblkid1 libcap-ng0 libcap2 libcc1-0 libcom-err2 libdebconfclient0 libext2fs2t64 libgcc-14-dev libgcc-s1 libgmp10 libgnutls30t64 libgomp1 libhogweed6t64 libhwasan0 libidn2-0 libitm1 libjansson4 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libmpc3 libmpfr6 libnettle8t64 libp11-kit0 libpam-modules libpam-modules-bin libpam0g libpcre2-8-0 libperl5.40 libquadmath0 libseccomp2 libsmartcols1 libss2 libssl3t64 libstdc++-14-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan2 libubsan1 libudev1 libunistring5 libuuid1 libxxhash0 libzstd1 linux-libc-dev login logsave mount ncurses-bin openssl-provider-legacy perl perl-base perl-modules-5.40 sysvinit-utils util-linux xz-utils zlib1g 81 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 92.8 MB of archives. After this operation, 12.3 kB of additional disk space will be used. Get:1 http://localhost:3142/debian unstable/main amd64 bash amd64 5.2.32-1+b2 [1500 kB] Get:2 http://localhost:3142/debian unstable/main amd64 bsdutils amd64 1:2.40.2-10 [105 kB] Get:3 http://localhost:3142/debian unstable/main amd64 coreutils amd64 9.5-1+b1 [2922 kB] Get:4 http://localhost:3142/debian unstable/main amd64 ncurses-bin amd64 6.5-2+b1 [434 kB] Get:5 http://localhost:3142/debian unstable/main amd64 libperl5.40 amd64 5.40.0-7 [4324 kB] Get:6 http://localhost:3142/debian unstable/main amd64 perl amd64 5.40.0-7 [267 kB] Get:7 http://localhost:3142/debian unstable/main amd64 perl-base amd64 5.40.0-7 [1675 kB] Get:8 http://localhost:3142/debian unstable/main amd64 perl-modules-5.40 all 5.40.0-7 [3017 kB] Get:9 http://localhost:3142/debian unstable/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1+b1 [88.9 kB] Get:10 http://localhost:3142/debian unstable/main amd64 libuuid1 amd64 2.40.2-10 [35.7 kB] Get:11 http://localhost:3142/debian unstable/main amd64 libblkid1 amd64 2.40.2-10 [168 kB] Get:12 http://localhost:3142/debian unstable/main amd64 libmount1 amd64 2.40.2-10 [199 kB] Get:13 http://localhost:3142/debian unstable/main amd64 libsmartcols1 amd64 2.40.2-10 [139 kB] Get:14 http://localhost:3142/debian unstable/main amd64 util-linux amd64 2.40.2-10 [1217 kB] Get:15 http://localhost:3142/debian unstable/main amd64 mount amd64 2.40.2-10 [154 kB] Get:16 http://localhost:3142/debian unstable/main amd64 libcc1-0 amd64 14.2.0-8 [42.8 kB] Get:17 http://localhost:3142/debian unstable/main amd64 gcc-14-base amd64 14.2.0-8 [47.2 kB] Get:18 http://localhost:3142/debian unstable/main amd64 libgcc-s1 amd64 14.2.0-8 [72.7 kB] Get:19 http://localhost:3142/debian unstable/main amd64 libgomp1 amd64 14.2.0-8 [137 kB] Get:20 http://localhost:3142/debian unstable/main amd64 libitm1 amd64 14.2.0-8 [25.9 kB] Get:21 http://localhost:3142/debian unstable/main amd64 libatomic1 amd64 14.2.0-8 [9280 B] Get:22 http://localhost:3142/debian unstable/main amd64 libasan8 amd64 14.2.0-8 [2729 kB] Get:23 http://localhost:3142/debian unstable/main amd64 liblsan0 amd64 14.2.0-8 [1205 kB] Get:24 http://localhost:3142/debian unstable/main amd64 libtsan2 amd64 14.2.0-8 [2461 kB] Get:25 http://localhost:3142/debian unstable/main amd64 libubsan1 amd64 14.2.0-8 [1075 kB] Get:26 http://localhost:3142/debian unstable/main amd64 libhwasan0 amd64 14.2.0-8 [1489 kB] Get:27 http://localhost:3142/debian unstable/main amd64 libquadmath0 amd64 14.2.0-8 [145 kB] Get:28 http://localhost:3142/debian unstable/main amd64 gcc-14 amd64 14.2.0-8 [530 kB] Get:29 http://localhost:3142/debian unstable/main amd64 g++-14 amd64 14.2.0-8 [20.2 kB] Get:30 http://localhost:3142/debian unstable/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-8 [12.1 MB] Get:31 http://localhost:3142/debian unstable/main amd64 libstdc++-14-dev amd64 14.2.0-8 [2369 kB] Get:32 http://localhost:3142/debian unstable/main amd64 libgcc-14-dev amd64 14.2.0-8 [2674 kB] Get:33 http://localhost:3142/debian unstable/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-8 [21.4 MB] Get:34 http://localhost:3142/debian unstable/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-8 [11.1 MB] Get:35 http://localhost:3142/debian unstable/main amd64 cpp-14 amd64 14.2.0-8 [1276 B] Get:36 http://localhost:3142/debian unstable/main amd64 libstdc++6 amd64 14.2.0-8 [714 kB] Get:37 http://localhost:3142/debian unstable/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b2 [560 kB] Get:38 http://localhost:3142/debian unstable/main amd64 libmpfr6 amd64 4.2.1-1+b2 [724 kB] Get:39 http://localhost:3142/debian unstable/main amd64 libmpc3 amd64 1.3.1-1+b3 [52.2 kB] Get:40 http://localhost:3142/debian unstable/main amd64 libzstd1 amd64 1.5.6+dfsg-1+b1 [300 kB] Get:41 http://localhost:3142/debian unstable/main amd64 libxxhash0 amd64 0.8.2-2+b2 [26.6 kB] Get:42 http://localhost:3142/debian unstable/main amd64 liblz4-1 amd64 1.9.4-3+b1 [60.3 kB] Get:43 http://localhost:3142/debian unstable/main amd64 liblzma5 amd64 5.6.3-1+b1 [272 kB] Get:44 http://localhost:3142/debian unstable/main amd64 libcap2 amd64 1:2.66-5+b1 [27.8 kB] Get:45 http://localhost:3142/debian unstable/main amd64 libsystemd0 amd64 257~rc1-4 [446 kB] Get:46 http://localhost:3142/debian unstable/main amd64 libudev1 amd64 257~rc1-4 [146 kB] Get:47 http://localhost:3142/debian unstable/main amd64 libapt-pkg6.0t64 amd64 2.9.10 [1045 kB] Get:48 http://localhost:3142/debian unstable/main amd64 libdebconfclient0 amd64 0.273 [10.1 kB] Get:49 http://localhost:3142/debian unstable/main amd64 base-passwd amd64 3.6.5 [53.1 kB] Get:50 http://localhost:3142/debian unstable/main amd64 gpgv amd64 2.2.45-2 [219 kB] Get:51 http://localhost:3142/debian unstable/main amd64 libnettle8t64 amd64 3.10-1+b1 [305 kB] Get:52 http://localhost:3142/debian unstable/main amd64 libhogweed6t64 amd64 3.10-1+b1 [335 kB] Get:53 http://localhost:3142/debian unstable/main amd64 libunistring5 amd64 1.2-1+b1 [429 kB] Get:54 http://localhost:3142/debian unstable/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB] Get:55 http://localhost:3142/debian unstable/main amd64 libp11-kit0 amd64 0.25.5-2+b1 [429 kB] Get:56 http://localhost:3142/debian unstable/main amd64 libtasn1-6 amd64 4.19.0-3+b3 [49.5 kB] Get:57 http://localhost:3142/debian unstable/main amd64 libgnutls30t64 amd64 3.8.8-2 [1454 kB] Get:58 http://localhost:3142/debian unstable/main amd64 libseccomp2 amd64 2.5.5-1+b2 [47.4 kB] Get:59 http://localhost:3142/debian unstable/main amd64 apt amd64 2.9.10 [1413 kB] Get:60 http://localhost:3142/debian unstable/main amd64 sysvinit-utils amd64 3.11-1 [33.1 kB] Get:61 http://localhost:3142/debian unstable/main amd64 libaudit-common all 1:4.0.2-1 [12.7 kB] Get:62 http://localhost:3142/debian unstable/main amd64 libcap-ng0 amd64 0.8.5-3 [17.2 kB] Get:63 http://localhost:3142/debian unstable/main amd64 libaudit1 amd64 1:4.0.2-1 [54.7 kB] Get:64 http://localhost:3142/debian unstable/main amd64 libpam0g amd64 1.5.3-7+b1 [68.3 kB] Get:65 http://localhost:3142/debian unstable/main amd64 libpam-modules-bin amd64 1.5.3-7+b1 [54.1 kB] Get:66 http://localhost:3142/debian unstable/main amd64 libpam-modules amd64 1.5.3-7+b1 [267 kB] Get:67 http://localhost:3142/debian unstable/main amd64 logsave amd64 1.47.1-1+b1 [23.0 kB] Get:68 http://localhost:3142/debian unstable/main amd64 libext2fs2t64 amd64 1.47.1-1+b1 [211 kB] Get:69 http://localhost:3142/debian unstable/main amd64 e2fsprogs amd64 1.47.1-1+b1 [585 kB] Get:70 http://localhost:3142/debian unstable/main amd64 login amd64 1:4.16.0-2+really2.40.2-10 [81.4 kB] Get:71 http://localhost:3142/debian unstable/main amd64 libacl1 amd64 2.3.2-2+b1 [32.9 kB] Get:72 http://localhost:3142/debian unstable/main amd64 libmd0 amd64 1.1.0-2+b1 [36.3 kB] Get:73 http://localhost:3142/debian unstable/main amd64 libpcre2-8-0 amd64 10.42-4+b2 [266 kB] Get:74 http://localhost:3142/debian unstable/main amd64 openssl-provider-legacy amd64 3.3.2-2 [298 kB] Get:75 http://localhost:3142/debian unstable/main amd64 libssl3t64 amd64 3.3.2-2 [2271 kB] Get:76 http://localhost:3142/debian unstable/main amd64 libtinfo6 amd64 6.5-2+b1 [344 kB] Get:77 http://localhost:3142/debian unstable/main amd64 xz-utils amd64 5.6.3-1+b1 [542 kB] Get:78 http://localhost:3142/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get:79 http://localhost:3142/debian unstable/main amd64 libjansson4 amd64 2.14-2+b3 [39.8 kB] Get:80 http://localhost:3142/debian unstable/main amd64 libss2 amd64 1.47.1-1+b1 [27.9 kB] Get:81 http://localhost:3142/debian unstable/main amd64 linux-libc-dev all 6.11.7-1 [2454 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 92.8 MB in 1s (184 MB/s) (Reading database ... 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Setting up libzstd1:amd64 (1.5.6+dfsg-1+b1) ... (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 ... 13010 files and directories currently installed.) Preparing to unpack .../libxxhash0_0.8.2-2+b2_amd64.deb ... Unpacking libxxhash0:amd64 (0.8.2-2+b2) over (0.8.2-2+b1) ... Setting up libxxhash0:amd64 (0.8.2-2+b2) ... (Reading database ... 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(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 ... 13013 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.5_amd64.deb ... Unpacking base-passwd (3.6.5) over (3.6.4) ... Setting up base-passwd (3.6.5) ... (Reading database ... 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(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 ... 13017 files and directories currently installed.) Preparing to unpack .../libunistring5_1.2-1+b1_amd64.deb ... Unpacking libunistring5:amd64 (1.2-1+b1) over (1.2-1) ... Setting up libunistring5:amd64 (1.2-1+b1) ... (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 ... 13018 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.7-2+b1_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.7-2+b1) over (2.3.7-2) ... Setting up libidn2-0:amd64 (2.3.7-2+b1) ... (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 ... 13019 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.25.5-2+b1_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-2+b1) over (0.25.5-2) ... Setting up libp11-kit0:amd64 (0.25.5-2+b1) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-3+b3_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-3+b3) over (4.19.0-3+b2) ... Setting up libtasn1-6:amd64 (4.19.0-3+b3) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../libgnutls30t64_3.8.8-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.8-2) over (3.8.6-2) ... Setting up libgnutls30t64:amd64 (3.8.8-2) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.5-1+b2_amd64.deb ... Unpacking libseccomp2:amd64 (2.5.5-1+b2) over (2.5.5-1+b1) ... Setting up libseccomp2:amd64 (2.5.5-1+b2) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../archives/apt_2.9.10_amd64.deb ... Unpacking apt (2.9.10) over (2.9.8) ... Setting up apt (2.9.10) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_3.11-1_amd64.deb ... Unpacking sysvinit-utils (3.11-1) over (3.10-3) ... Setting up sysvinit-utils (3.11-1) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a4.0.2-1_all.deb ... Unpacking libaudit-common (1:4.0.2-1) over (1:4.0.1-1) ... Setting up libaudit-common (1:4.0.2-1) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.5-3_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.5-3) over (0.8.5-2) ... Setting up libcap-ng0:amd64 (0.8.5-3) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a4.0.2-1_amd64.deb ... Unpacking libaudit1:amd64 (1:4.0.2-1) over (1:4.0.1-1) ... Setting up libaudit1:amd64 (1:4.0.2-1) ... (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 ... 13020 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.3-7+b1_amd64.deb ... Unpacking libpam0g:amd64 (1.5.3-7+b1) over (1.5.3-7) ... Setting up libpam0g:amd64 (1.5.3-7+b1) ... (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 ... 13021 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.3-7+b1_amd64.deb ... Unpacking libpam-modules-bin (1.5.3-7+b1) over (1.5.3-7) ... Setting up libpam-modules-bin (1.5.3-7+b1) ... (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 ... 13022 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.3-7+b1_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.3-7+b1) over (1.5.3-7) ... Setting up libpam-modules:amd64 (1.5.3-7+b1) ... (Reading database ... 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Leaving 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' Unpacking libext2fs2t64:amd64 (1.47.1-1+b1) over (1.47.1-1) ... Setting up libext2fs2t64:amd64 (1.47.1-1+b1) ... (Reading database ... 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Setting up libtsan2:amd64 (14.2.0-8) ... Setting up libcc1-0:amd64 (14.2.0-8) ... Setting up liblsan0:amd64 (14.2.0-8) ... Setting up libitm1:amd64 (14.2.0-8) ... Setting up login (1:4.16.0-2+really2.40.2-10) ... Setting up e2fsprogs (1.47.1-1+b1) ... Setting up libperl5.40:amd64 (5.40.0-7) ... Setting up perl (5.40.0-7) ... Setting up libgcc-14-dev:amd64 (14.2.0-8) ... Setting up libstdc++-14-dev:amd64 (14.2.0-8) ... Setting up gcc-14-x86-64-linux-gnu (14.2.0-8) ... Setting up gcc-14 (14.2.0-8) ... Setting up g++-14-x86-64-linux-gnu (14.2.0-8) ... Setting up g++-14 (14.2.0-8) ... Processing triggers for debianutils (5.20) ... Processing triggers for libc-bin (2.40-3) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'rna-star' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/rna-star.git Please use: git clone https://salsa.debian.org/med-team/rna-star.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 902 kB of source archives. Get:1 http://localhost:3142/debian unstable/main rna-star 2.7.11b+dfsg-2 (dsc) [2163 B] Get:2 http://localhost:3142/debian unstable/main rna-star 2.7.11b+dfsg-2 (tar) [521 kB] Get:3 http://localhost:3142/debian unstable/main rna-star 2.7.11b+dfsg-2 (diff) [379 kB] Fetched 902 kB in 0s (16.8 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/rna-star-REwKzV/rna-star-2.7.11b+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/rna-star-REwKzV' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), architecture-is-64-bit, architecture-is-little-endian, libhts-dev, xxd, zlib1g-dev, libsimde-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64, libc-dev:arm64, libstdc++-dev:arm64 Filtered Build-Depends: debhelper-compat (= 13), architecture-is-64-bit, architecture-is-little-endian, libhts-dev, xxd, zlib1g-dev, libsimde-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64, libc-dev:arm64, libstdc++-dev:arm64 dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [812 B] Get:5 copy:/<>/apt_archive ./ Packages [855 B] Fetched 2276 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Execute external solver... The following additional packages will be installed: architecture-properties:arm64 autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdextrautils comerr-dev:arm64 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu crossbuild-essential-arm64 debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-14-aarch64-linux-gnu gcc-14-aarch64-linux-gnu-base gcc-14-base:arm64 gcc-14-cross-base gcc-aarch64-linux-gnu gettext gettext-base groff-base intltool-debian krb5-multidev:arm64 libarchive-zip-perl libasan8:arm64 libasan8-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libbrotli-dev:arm64 libbrotli1:arm64 libbz2-1.0:arm64 libbz2-dev:arm64 libc6:arm64 libc6-arm64-cross libc6-dev:arm64 libc6-dev-arm64-cross libcom-err2:arm64 libcrypt-dev:arm64 libcrypt1:arm64 libcurl3t64-gnutls:arm64 libcurl4-gnutls-dev:arm64 libdb5.3t64:arm64 libdebhelper-perl libdeflate-dev:arm64 libdeflate0:arm64 libelf1t64 libevent-2.1-7t64:arm64 libfakeroot libffi8:arm64 libfile-stripnondeterminism-perl libgcc-14-dev:arm64 libgcc-14-dev-arm64-cross libgcc-s1:arm64 libgcc-s1-arm64-cross libgmp-dev:arm64 libgmp10:arm64 libgmpxx4ldbl:arm64 libgnutls-dane0t64:arm64 libgnutls-openssl27t64:arm64 libgnutls28-dev:arm64 libgnutls30t64:arm64 libgomp1:arm64 libgomp1-arm64-cross libgssapi-krb5-2:arm64 libgssrpc4t64:arm64 libhogweed6t64:arm64 libhts-dev:arm64 libhts3t64:arm64 libhtscodecs2:arm64 libhwasan0:arm64 libhwasan0-arm64-cross libicu72 libidn2-0:arm64 libidn2-dev:arm64 libitm1:arm64 libitm1-arm64-cross libk5crypto3:arm64 libkadm5clnt-mit12:arm64 libkadm5srv-mit12:arm64 libkdb5-10t64:arm64 libkeyutils1:arm64 libkrb5-3:arm64 libkrb5-dev:arm64 libkrb5support0:arm64 libldap-2.5-0:arm64 libldap-dev:arm64 liblsan0:arm64 liblsan0-arm64-cross liblzma-dev:arm64 liblzma5:arm64 libmagic-mgc libmagic1t64 libnettle8t64:arm64 libnghttp2-14:arm64 libnghttp2-dev:arm64 libnghttp3-9:arm64 libnghttp3-dev:arm64 libngtcp2-16:arm64 libngtcp2-crypto-gnutls-dev:arm64 libngtcp2-crypto-gnutls8:arm64 libngtcp2-dev:arm64 libp11-kit-dev:arm64 libp11-kit0:arm64 libpipeline1 libpkgconf3 libpsl-dev:arm64 libpsl5t64:arm64 librtmp-dev:arm64 librtmp1:arm64 libsasl2-2:arm64 libsasl2-modules-db:arm64 libsimde-dev libssh2-1-dev:arm64 libssh2-1t64:arm64 libssl-dev:arm64 libssl3t64:arm64 libstdc++-14-dev:arm64 libstdc++-14-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libtasn1-6:arm64 libtasn1-6-dev:arm64 libtool libtsan2:arm64 libtsan2-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libunbound8:arm64 libunistring5:arm64 libxml2 libzstd-dev:arm64 libzstd1:arm64 linux-libc-dev-arm64-cross m4 man-db nettle-dev:arm64 pkgconf:arm64 pkgconf-bin po-debconf sensible-utils xxd zlib1g:arm64 zlib1g-dev:arm64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc doc-base:arm64 gcc-14-locales cpp-14-doc cpp-doc dh-make gcc-14-doc manpages-dev flex bison gdb-aarch64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff krb5-doc:arm64 glibc-doc:arm64 libc-l10n:arm64 locales:arm64 libnss-nis:arm64 libnss-nisplus:arm64 manpages-dev:arm64 libcurl4-doc:arm64 libidn-dev:arm64 gmp-doc:arm64 libgmp10-doc:arm64 libmpfr-dev:arm64 dns-root-data:arm64 gnutls-bin:arm64 gnutls-doc:arm64 krb5-user:arm64 liblzma-doc:arm64 libnghttp2-doc:arm64 p11-kit-doc:arm64 libssl-doc:arm64 libstdc++-14-doc:arm64 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx bzip2-doc:arm64 ca-certificates:arm64 libarchive-cpio-perl krb5-locales:arm64 libldap-common:arm64 publicsuffix:arm64 libsasl2-modules:arm64 libtasn1-doc:arm64 libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: architecture-properties:arm64 autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdextrautils comerr-dev:arm64 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu crossbuild-essential-arm64 debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-14-aarch64-linux-gnu gcc-14-aarch64-linux-gnu-base gcc-14-base:arm64 gcc-14-cross-base gcc-aarch64-linux-gnu gettext gettext-base groff-base intltool-debian krb5-multidev:arm64 libarchive-zip-perl libasan8:arm64 libasan8-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libbrotli-dev:arm64 libbrotli1:arm64 libbz2-1.0:arm64 libbz2-dev:arm64 libc6:arm64 libc6-arm64-cross libc6-dev:arm64 libc6-dev-arm64-cross libcom-err2:arm64 libcrypt-dev:arm64 libcrypt1:arm64 libcurl3t64-gnutls:arm64 libcurl4-gnutls-dev:arm64 libdb5.3t64:arm64 libdebhelper-perl libdeflate-dev:arm64 libdeflate0:arm64 libelf1t64 libevent-2.1-7t64:arm64 libfakeroot libffi8:arm64 libfile-stripnondeterminism-perl libgcc-14-dev:arm64 libgcc-14-dev-arm64-cross libgcc-s1:arm64 libgcc-s1-arm64-cross libgmp-dev:arm64 libgmp10:arm64 libgmpxx4ldbl:arm64 libgnutls-dane0t64:arm64 libgnutls-openssl27t64:arm64 libgnutls28-dev:arm64 libgnutls30t64:arm64 libgomp1:arm64 libgomp1-arm64-cross libgssapi-krb5-2:arm64 libgssrpc4t64:arm64 libhogweed6t64:arm64 libhts-dev:arm64 libhts3t64:arm64 libhtscodecs2:arm64 libhwasan0:arm64 libhwasan0-arm64-cross libicu72 libidn2-0:arm64 libidn2-dev:arm64 libitm1:arm64 libitm1-arm64-cross libk5crypto3:arm64 libkadm5clnt-mit12:arm64 libkadm5srv-mit12:arm64 libkdb5-10t64:arm64 libkeyutils1:arm64 libkrb5-3:arm64 libkrb5-dev:arm64 libkrb5support0:arm64 libldap-2.5-0:arm64 libldap-dev:arm64 liblsan0:arm64 liblsan0-arm64-cross liblzma-dev:arm64 liblzma5:arm64 libmagic-mgc libmagic1t64 libnettle8t64:arm64 libnghttp2-14:arm64 libnghttp2-dev:arm64 libnghttp3-9:arm64 libnghttp3-dev:arm64 libngtcp2-16:arm64 libngtcp2-crypto-gnutls-dev:arm64 libngtcp2-crypto-gnutls8:arm64 libngtcp2-dev:arm64 libp11-kit-dev:arm64 libp11-kit0:arm64 libpipeline1 libpkgconf3 libpsl-dev:arm64 libpsl5t64:arm64 librtmp-dev:arm64 librtmp1:arm64 libsasl2-2:arm64 libsasl2-modules-db:arm64 libsimde-dev libssh2-1-dev:arm64 libssh2-1t64:arm64 libssl-dev:arm64 libssl3t64:arm64 libstdc++-14-dev:arm64 libstdc++-14-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libtasn1-6:arm64 libtasn1-6-dev:arm64 libtool libtsan2:arm64 libtsan2-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libunbound8:arm64 libunistring5:arm64 libxml2 libzstd-dev:arm64 libzstd1:arm64 linux-libc-dev-arm64-cross m4 man-db nettle-dev:arm64 pkgconf:arm64 pkgconf-bin po-debconf sbuild-build-depends-main-dummy:arm64 sensible-utils xxd zlib1g:arm64 zlib1g-dev:arm64 0 upgraded, 151 newly installed, 0 to remove and 0 not upgraded. Need to get 124 MB of archives. After this operation, 532 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [960 B] Get:2 http://localhost:3142/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:3 http://localhost:3142/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get:4 http://localhost:3142/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get:5 http://localhost:3142/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get:6 http://localhost:3142/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get:7 http://localhost:3142/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get:8 http://localhost:3142/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get:9 http://localhost:3142/debian unstable/main amd64 bsdextrautils amd64 2.40.2-10 [97.2 kB] Get:10 http://localhost:3142/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get:11 http://localhost:3142/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get:12 http://localhost:3142/debian unstable/main arm64 architecture-properties arm64 0.2.3 [2184 B] Get:13 http://localhost:3142/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:14 http://localhost:3142/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get:15 http://localhost:3142/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:16 http://localhost:3142/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:17 http://localhost:3142/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get:18 http://localhost:3142/debian unstable/main amd64 binutils-aarch64-linux-gnu amd64 2.43.1-5 [3543 kB] Get:19 http://localhost:3142/debian unstable/main arm64 gcc-14-base arm64 14.2.0-8 [47.2 kB] Get:20 http://localhost:3142/debian unstable/main arm64 libgcc-s1 arm64 14.2.0-8 [54.1 kB] Get:21 http://localhost:3142/debian unstable/main arm64 libc6 arm64 2.40-3 [2453 kB] Get:22 http://localhost:3142/debian unstable/main arm64 libcrypt1 arm64 1:4.4.36-5 [91.6 kB] Get:23 http://localhost:3142/debian unstable/main arm64 libcrypt-dev arm64 1:4.4.36-5 [122 kB] Get:24 http://localhost:3142/debian unstable/main arm64 libc6-dev arm64 2.40-3 [1591 kB] Get:25 http://localhost:3142/debian unstable/main arm64 libcom-err2 arm64 1.47.1-1+b1 [23.1 kB] Get:26 http://localhost:3142/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.1-1+b1 [55.1 kB] Get:27 http://localhost:3142/debian unstable/main amd64 gcc-14-aarch64-linux-gnu-base amd64 14.2.0-6cross1 [47.0 kB] Get:28 http://localhost:3142/debian unstable/main amd64 cpp-14-aarch64-linux-gnu amd64 14.2.0-6cross1 [11.2 MB] Get:29 http://localhost:3142/debian unstable/main amd64 cpp-aarch64-linux-gnu amd64 4:14.2.0-1 [4844 B] Get:30 http://localhost:3142/debian unstable/main amd64 gcc-14-cross-base all 14.2.0-6cross1 [42.2 kB] Get:31 http://localhost:3142/debian unstable/main amd64 libc6-arm64-cross all 2.40-3cross1 [1141 kB] Get:32 http://localhost:3142/debian unstable/main amd64 libgcc-s1-arm64-cross all 14.2.0-6cross1 [54.0 kB] Get:33 http://localhost:3142/debian unstable/main amd64 libgomp1-arm64-cross all 14.2.0-6cross1 [91.7 kB] Get:34 http://localhost:3142/debian unstable/main amd64 libitm1-arm64-cross all 14.2.0-6cross1 [25.9 kB] Get:35 http://localhost:3142/debian unstable/main amd64 libatomic1-arm64-cross all 14.2.0-6cross1 [10.3 kB] Get:36 http://localhost:3142/debian unstable/main amd64 libasan8-arm64-cross all 14.2.0-6cross1 [436 kB] Get:37 http://localhost:3142/debian unstable/main amd64 liblsan0-arm64-cross all 14.2.0-6cross1 [201 kB] Get:38 http://localhost:3142/debian unstable/main amd64 libtsan2-arm64-cross all 14.2.0-6cross1 [415 kB] Get:39 http://localhost:3142/debian unstable/main amd64 libstdc++6-arm64-cross all 14.2.0-6cross1 [546 kB] Get:40 http://localhost:3142/debian unstable/main amd64 libubsan1-arm64-cross all 14.2.0-6cross1 [186 kB] Get:41 http://localhost:3142/debian unstable/main amd64 libhwasan0-arm64-cross all 14.2.0-6cross1 [256 kB] Get:42 http://localhost:3142/debian unstable/main amd64 libgcc-14-dev-arm64-cross all 14.2.0-6cross1 [2458 kB] Get:43 http://localhost:3142/debian unstable/main amd64 gcc-14-aarch64-linux-gnu amd64 14.2.0-6cross1 [21.6 MB] Get:44 http://localhost:3142/debian unstable/main amd64 gcc-aarch64-linux-gnu amd64 4:14.2.0-1 [1448 B] Get:45 http://localhost:3142/debian unstable/main amd64 linux-libc-dev-arm64-cross all 6.11.2-1cross1 [2241 kB] Get:46 http://localhost:3142/debian unstable/main amd64 libc6-dev-arm64-cross all 2.40-3cross1 [1585 kB] Get:47 http://localhost:3142/debian unstable/main amd64 libstdc++-14-dev-arm64-cross all 14.2.0-6cross1 [2543 kB] Get:48 http://localhost:3142/debian unstable/main amd64 g++-14-aarch64-linux-gnu amd64 14.2.0-6cross1 [12.2 MB] Get:49 http://localhost:3142/debian unstable/main amd64 g++-aarch64-linux-gnu amd64 4:14.2.0-1 [1200 B] Get:50 http://localhost:3142/debian unstable/main amd64 crossbuild-essential-arm64 all 12.12 [3548 B] Get:51 http://localhost:3142/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get:52 http://localhost:3142/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get:53 http://localhost:3142/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:54 http://localhost:3142/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:55 http://localhost:3142/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get:56 http://localhost:3142/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:57 http://localhost:3142/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get:58 http://localhost:3142/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:59 http://localhost:3142/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get:60 http://localhost:3142/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2 [699 kB] Get:61 http://localhost:3142/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get:62 http://localhost:3142/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:63 http://localhost:3142/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:64 http://localhost:3142/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get:65 http://localhost:3142/debian unstable/main amd64 libfakeroot amd64 1.36-1 [29.1 kB] Get:66 http://localhost:3142/debian unstable/main amd64 fakeroot amd64 1.36-1 [75.1 kB] Get:67 http://localhost:3142/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB] Get:68 http://localhost:3142/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB] Get:69 http://localhost:3142/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get:70 http://localhost:3142/debian unstable/main arm64 libzstd1 arm64 1.5.6+dfsg-1+b1 [261 kB] Get:71 http://localhost:3142/debian unstable/main arm64 zlib1g arm64 1:1.3.dfsg+really1.3.1-1+b1 [85.1 kB] Get:72 http://localhost:3142/debian unstable/main arm64 libssl3t64 arm64 3.3.2-2 [2600 kB] Get:73 http://localhost:3142/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB] Get:74 http://localhost:3142/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB] Get:75 http://localhost:3142/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-3 [56.7 kB] Get:76 http://localhost:3142/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-3 [40.3 kB] Get:77 http://localhost:3142/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-3 [40.8 kB] Get:78 http://localhost:3142/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-3 [52.2 kB] Get:79 http://localhost:3142/debian unstable/main arm64 krb5-multidev arm64 1.21.3-3 [126 kB] Get:80 http://localhost:3142/debian unstable/main arm64 libasan8 arm64 14.2.0-8 [2579 kB] Get:81 http://localhost:3142/debian unstable/main arm64 libatomic1 arm64 14.2.0-8 [10.1 kB] Get:82 http://localhost:3142/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b5 [296 kB] Get:83 http://localhost:3142/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b5 [308 kB] Get:84 http://localhost:3142/debian unstable/main arm64 libbz2-1.0 arm64 1.0.8-6 [37.8 kB] Get:85 http://localhost:3142/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get:86 http://localhost:3142/debian unstable/main arm64 libgmp10 arm64 2:6.3.0+dfsg-2+b2 [535 kB] Get:87 http://localhost:3142/debian unstable/main arm64 libnettle8t64 arm64 3.10-1+b1 [309 kB] Get:88 http://localhost:3142/debian unstable/main arm64 libhogweed6t64 arm64 3.10-1+b1 [331 kB] Get:89 http://localhost:3142/debian unstable/main arm64 libunistring5 arm64 1.2-1+b1 [417 kB] Get:90 http://localhost:3142/debian unstable/main arm64 libidn2-0 arm64 2.3.7-2+b1 [127 kB] Get:91 http://localhost:3142/debian unstable/main arm64 libffi8 arm64 3.4.6-1 [20.9 kB] Get:92 http://localhost:3142/debian unstable/main arm64 libp11-kit0 arm64 0.25.5-2+b1 [411 kB] Get:93 http://localhost:3142/debian unstable/main arm64 libtasn1-6 arm64 4.19.0-3+b3 [46.9 kB] Get:94 http://localhost:3142/debian unstable/main arm64 libgnutls30t64 arm64 3.8.8-2 [1363 kB] Get:95 http://localhost:3142/debian unstable/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-9 [629 kB] Get:96 http://localhost:3142/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB] Get:97 http://localhost:3142/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB] Get:98 http://localhost:3142/debian unstable/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3+b1 [175 kB] Get:99 http://localhost:3142/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB] Get:100 http://localhost:3142/debian unstable/main arm64 libnghttp3-9 arm64 1.4.0-1+b1 [59.6 kB] Get:101 http://localhost:3142/debian unstable/main arm64 libngtcp2-16 arm64 1.6.0-1 [112 kB] Get:102 http://localhost:3142/debian unstable/main arm64 libngtcp2-crypto-gnutls8 arm64 1.6.0-1 [18.5 kB] Get:103 http://localhost:3142/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get:104 http://localhost:3142/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get:105 http://localhost:3142/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get:106 http://localhost:3142/debian unstable/main arm64 libcurl3t64-gnutls arm64 8.11.0-1 [331 kB] Get:107 http://localhost:3142/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get:108 http://localhost:3142/debian unstable/main arm64 libunbound8 arm64 1.22.0-1 [553 kB] Get:109 http://localhost:3142/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.8-2 [446 kB] Get:110 http://localhost:3142/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.8-2 [446 kB] Get:111 http://localhost:3142/debian unstable/main arm64 libidn2-dev arm64 2.3.7-2+b1 [122 kB] Get:112 http://localhost:3142/debian unstable/main arm64 libp11-kit-dev arm64 0.25.5-2+b1 [208 kB] Get:113 http://localhost:3142/debian unstable/main arm64 libtasn1-6-dev arm64 4.19.0-3+b3 [96.5 kB] Get:114 http://localhost:3142/debian unstable/main arm64 libstdc++6 arm64 14.2.0-8 [637 kB] Get:115 http://localhost:3142/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-2+b2 [329 kB] Get:116 http://localhost:3142/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-2+b2 [621 kB] Get:117 http://localhost:3142/debian unstable/main arm64 nettle-dev arm64 3.10-1+b1 [1324 kB] Get:118 http://localhost:3142/debian unstable/main arm64 libgnutls28-dev arm64 3.8.8-2 [1404 kB] Get:119 http://localhost:3142/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-3 [15.8 kB] Get:120 http://localhost:3142/debian unstable/main arm64 libldap-dev arm64 2.5.18+dfsg-3+b1 [300 kB] Get:121 http://localhost:3142/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get:122 http://localhost:3142/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get:123 http://localhost:3142/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get:124 http://localhost:3142/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1 [112 kB] Get:125 http://localhost:3142/debian unstable/main arm64 libnghttp3-dev arm64 1.4.0-1+b1 [85.2 kB] Get:126 http://localhost:3142/debian unstable/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.6.0-1 [23.7 kB] Get:127 http://localhost:3142/debian unstable/main arm64 libngtcp2-dev arm64 1.6.0-1 [165 kB] Get:128 http://localhost:3142/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get:129 http://localhost:3142/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get:130 http://localhost:3142/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB] Get:131 http://localhost:3142/debian unstable/main arm64 libssl-dev arm64 3.3.2-2 [3185 kB] Get:132 http://localhost:3142/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get:133 http://localhost:3142/debian unstable/main arm64 libzstd-dev arm64 1.5.6+dfsg-1+b1 [329 kB] Get:134 http://localhost:3142/debian unstable/main arm64 libcurl4-gnutls-dev arm64 8.11.0-1 [459 kB] Get:135 http://localhost:3142/debian unstable/main arm64 libdeflate0 arm64 1.22-1 [42.2 kB] Get:136 http://localhost:3142/debian unstable/main arm64 libdeflate-dev arm64 1.22-1 [51.2 kB] Get:137 http://localhost:3142/debian unstable/main arm64 libgomp1 arm64 14.2.0-8 [124 kB] Get:138 http://localhost:3142/debian unstable/main arm64 libitm1 arm64 14.2.0-8 [24.2 kB] Get:139 http://localhost:3142/debian unstable/main arm64 liblsan0 arm64 14.2.0-8 [1161 kB] Get:140 http://localhost:3142/debian unstable/main arm64 libtsan2 arm64 14.2.0-8 [2386 kB] Get:141 http://localhost:3142/debian unstable/main arm64 libubsan1 arm64 14.2.0-8 [1039 kB] Get:142 http://localhost:3142/debian unstable/main arm64 libhwasan0 arm64 14.2.0-8 [1442 kB] Get:143 http://localhost:3142/debian unstable/main arm64 libgcc-14-dev arm64 14.2.0-8 [2365 kB] Get:144 http://localhost:3142/debian unstable/main arm64 libhtscodecs2 arm64 1.6.1-1 [74.6 kB] Get:145 http://localhost:3142/debian unstable/main arm64 liblzma5 arm64 5.6.3-1+b1 [266 kB] Get:146 http://localhost:3142/debian unstable/main arm64 libhts3t64 arm64 1.20+ds-2 [420 kB] Get:147 http://localhost:3142/debian unstable/main arm64 liblzma-dev arm64 5.6.3-1+b1 [312 kB] Get:148 http://localhost:3142/debian unstable/main arm64 libhts-dev arm64 1.20+ds-2 [1626 kB] Get:149 http://localhost:3142/debian unstable/main amd64 libsimde-dev all 0.8.2-1 [465 kB] Get:150 http://localhost:3142/debian unstable/main arm64 libstdc++-14-dev arm64 14.2.0-8 [2267 kB] Get:151 http://localhost:3142/debian unstable/main amd64 xxd amd64 2:9.1.0777-1+b1 [98.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 124 MB in 2s (80.5 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 13032 files and directories currently installed.) Preparing to unpack .../000-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../001-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../002-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../003-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../004-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../005-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../006-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../007-bsdextrautils_2.40.2-10_amd64.deb ... Unpacking bsdextrautils (2.40.2-10) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../008-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../009-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package architecture-properties:arm64. Preparing to unpack .../010-architecture-properties_0.2.3_arm64.deb ... Unpacking architecture-properties:arm64 (0.2.3) ... Selecting previously unselected package m4. Preparing to unpack .../011-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../012-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../013-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../014-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../015-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package binutils-aarch64-linux-gnu. Preparing to unpack .../016-binutils-aarch64-linux-gnu_2.43.1-5_amd64.deb ... Unpacking binutils-aarch64-linux-gnu (2.43.1-5) ... Selecting previously unselected package gcc-14-base:arm64. Preparing to unpack .../017-gcc-14-base_14.2.0-8_arm64.deb ... Unpacking gcc-14-base:arm64 (14.2.0-8) ... Selecting previously unselected package libgcc-s1:arm64. Preparing to unpack .../018-libgcc-s1_14.2.0-8_arm64.deb ... Unpacking libgcc-s1:arm64 (14.2.0-8) ... Selecting previously unselected package libc6:arm64. Preparing to unpack .../019-libc6_2.40-3_arm64.deb ... Unpacking libc6:arm64 (2.40-3) ... Selecting previously unselected package libcrypt1:arm64. Preparing to unpack .../020-libcrypt1_1%3a4.4.36-5_arm64.deb ... Unpacking libcrypt1:arm64 (1:4.4.36-5) ... Selecting previously unselected package libcrypt-dev:arm64. Preparing to unpack .../021-libcrypt-dev_1%3a4.4.36-5_arm64.deb ... Unpacking libcrypt-dev:arm64 (1:4.4.36-5) ... Selecting previously unselected package libc6-dev:arm64. Preparing to unpack .../022-libc6-dev_2.40-3_arm64.deb ... Unpacking libc6-dev:arm64 (2.40-3) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../023-libcom-err2_1.47.1-1+b1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.1-1+b1) ... Selecting previously unselected package comerr-dev:arm64. Preparing to unpack .../024-comerr-dev_2.1-1.47.1-1+b1_arm64.deb ... Unpacking comerr-dev:arm64 (2.1-1.47.1-1+b1) ... Selecting previously unselected package gcc-14-aarch64-linux-gnu-base:amd64. Preparing to unpack .../025-gcc-14-aarch64-linux-gnu-base_14.2.0-6cross1_amd64.deb ... Unpacking gcc-14-aarch64-linux-gnu-base:amd64 (14.2.0-6cross1) ... Selecting previously unselected package cpp-14-aarch64-linux-gnu. Preparing to unpack .../026-cpp-14-aarch64-linux-gnu_14.2.0-6cross1_amd64.deb ... Unpacking cpp-14-aarch64-linux-gnu (14.2.0-6cross1) ... Selecting previously unselected package cpp-aarch64-linux-gnu. Preparing to unpack .../027-cpp-aarch64-linux-gnu_4%3a14.2.0-1_amd64.deb ... Unpacking cpp-aarch64-linux-gnu (4:14.2.0-1) ... Selecting previously unselected package gcc-14-cross-base. Preparing to unpack .../028-gcc-14-cross-base_14.2.0-6cross1_all.deb ... Unpacking gcc-14-cross-base (14.2.0-6cross1) ... Selecting previously unselected package libc6-arm64-cross. 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Setting up bsdextrautils (2.40.2-10) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up gcc-14-base:arm64 (14.2.0-8) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up architecture-properties:arm64 (0.2.3) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up binutils-aarch64-linux-gnu (2.43.1-5) ... Setting up gcc-14-cross-base (14.2.0-6cross1) ... Setting up file (1:5.45-3+b1) ... Setting up xxd (2:9.1.0777-1+b1) ... Setting up libfakeroot:amd64 (1.36-1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up fakeroot (1.36-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up autotools-dev (20220109.1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libc6-arm64-cross (2.40-3cross1) ... Setting up autopoint (0.22.5-2) ... Setting up libitm1-arm64-cross (14.2.0-6cross1) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up autoconf (2.72-3) ... Setting up linux-libc-dev-arm64-cross (6.11.2-1cross1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up gcc-14-aarch64-linux-gnu-base:amd64 (14.2.0-6cross1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2) ... Setting up libgcc-s1-arm64-cross (14.2.0-6cross1) ... Setting up libatomic1-arm64-cross (14.2.0-6cross1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up liblsan0-arm64-cross (14.2.0-6cross1) ... Setting up libgomp1-arm64-cross (14.2.0-6cross1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up libhwasan0-arm64-cross (14.2.0-6cross1) ... Setting up libc6-dev-arm64-cross (2.40-3cross1) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libstdc++6-arm64-cross (14.2.0-6cross1) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up cpp-14-aarch64-linux-gnu (14.2.0-6cross1) ... Setting up groff-base (1.23.0-5) ... Setting up libasan8-arm64-cross (14.2.0-6cross1) ... Setting up libtsan2-arm64-cross (14.2.0-6cross1) ... Setting up libubsan1-arm64-cross (14.2.0-6cross1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up cpp-aarch64-linux-gnu (4:14.2.0-1) ... Setting up libgcc-14-dev-arm64-cross (14.2.0-6cross1) ... Setting up libstdc++-14-dev-arm64-cross (14.2.0-6cross1) ... Setting up gcc-14-aarch64-linux-gnu (14.2.0-6cross1) ... Setting up gcc-aarch64-linux-gnu (4:14.2.0-1) ... Setting up g++-14-aarch64-linux-gnu (14.2.0-6cross1) ... Setting up debhelper (13.20) ... 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Setting up liblzma5:arm64 (5.6.3-1+b1) ... Setting up libbrotli1:arm64 (1.1.0-2+b5) ... Setting up libnghttp2-14:arm64 (1.64.0-1) ... Setting up libdeflate0:arm64 (1.22-1) ... Setting up libevent-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up zlib1g:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libcrypt1:arm64 (1:4.4.36-5) ... Setting up libcom-err2:arm64 (1.47.1-1+b1) ... Setting up libngtcp2-dev:arm64 (1.6.0-1) ... Setting up libgomp1:arm64 (14.2.0-8) ... Setting up libkrb5support0:arm64 (1.21.3-3) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-8) ... Setting up libnettle8t64:arm64 (3.10-1+b1) ... Setting up libgmp10:arm64 (2:6.3.0+dfsg-2+b2) ... Setting up libp11-kit0:arm64 (0.25.5-2+b1) ... Setting up libunistring5:arm64 (1.2-1+b1) ... Setting up libatomic1:arm64 (14.2.0-8) ... Setting up libk5crypto3:arm64 (1.21.3-3) ... Setting up liblzma-dev:arm64 (5.6.3-1+b1) ... Setting up libubsan1:arm64 (14.2.0-8) ... Setting up libhogweed6t64:arm64 (3.10-1+b1) ... 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Processing triggers for libc-bin (2.40-3) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-26-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.112-1 (2024-09-30) amd64 (x86_64) Toolchain package versions: binutils_2.43.1-5 dpkg-dev_1.22.11 g++-14_14.2.0-8 gcc-14_14.2.0-8 libc6-dev_2.40-3 libstdc++-14-dev_14.2.0-8 libstdc++-14-dev-arm64-cross_14.2.0-6cross1 libstdc++6_14.2.0-8 libstdc++6-arm64-cross_14.2.0-6cross1 linux-libc-dev_6.11.7-1 Package versions: apt_2.9.10 architecture-properties_0.2.3 autoconf_2.72-3 automake_1:1.16.5-1.3 autopoint_0.22.5-2 autotools-dev_20220109.1 base-files_13.5 base-passwd_3.6.5 bash_5.2.32-1+b2 binutils_2.43.1-5 binutils-aarch64-linux-gnu_2.43.1-5 binutils-common_2.43.1-5 binutils-x86-64-linux-gnu_2.43.1-5 bsdextrautils_2.40.2-10 bsdutils_1:2.40.2-10 build-essential_12.12 bzip2_1.0.8-6 comerr-dev_2.1-1.47.1-1+b1 coreutils_9.5-1+b1 cpp_4:14.2.0-1 cpp-14_14.2.0-8 cpp-14-aarch64-linux-gnu_14.2.0-6cross1 cpp-14-x86-64-linux-gnu_14.2.0-8 cpp-aarch64-linux-gnu_4:14.2.0-1 cpp-x86-64-linux-gnu_4:14.2.0-1 crossbuild-essential-arm64_12.12 dash_0.5.12-9 debconf_1.5.87 debhelper_13.20 debian-archive-keyring_2023.4 debianutils_5.20 dh-autoreconf_20 dh-strip-nondeterminism_1.14.0-1 diffutils_1:3.10-1 dpkg_1.22.11 dpkg-dev_1.22.11 dwz_0.15-1+b1 e2fsprogs_1.47.1-1+b1 fakeroot_1.36-1 file_1:5.45-3+b1 findutils_4.10.0-3 g++_4:14.2.0-1 g++-14_14.2.0-8 g++-14-aarch64-linux-gnu_14.2.0-6cross1 g++-14-x86-64-linux-gnu_14.2.0-8 g++-aarch64-linux-gnu_4:14.2.0-1 g++-x86-64-linux-gnu_4:14.2.0-1 gcc_4:14.2.0-1 gcc-14_14.2.0-8 gcc-14-aarch64-linux-gnu_14.2.0-6cross1 gcc-14-aarch64-linux-gnu-base_14.2.0-6cross1 gcc-14-base_14.2.0-8 gcc-14-cross-base_14.2.0-6cross1 gcc-14-x86-64-linux-gnu_14.2.0-8 gcc-aarch64-linux-gnu_4:14.2.0-1 gcc-x86-64-linux-gnu_4:14.2.0-1 gettext_0.22.5-2 gettext-base_0.22.5-2 gpgv_2.2.45-2 grep_3.11-4 groff-base_1.23.0-5 gzip_1.12-1.1 hostname_3.25 init-system-helpers_1.67 intltool-debian_0.35.0+20060710.6 krb5-multidev_1.21.3-3 libacl1_2.3.2-2+b1 libapt-pkg6.0t64_2.9.10 libarchive-zip-perl_1.68-1 libasan8_14.2.0-8 libasan8-arm64-cross_14.2.0-6cross1 libatomic1_14.2.0-8 libatomic1-arm64-cross_14.2.0-6cross1 libattr1_1:2.5.2-2 libaudit-common_1:4.0.2-1 libaudit1_1:4.0.2-1 libbinutils_2.43.1-5 libblkid1_2.40.2-10 libbrotli-dev_1.1.0-2+b5 libbrotli1_1.1.0-2+b5 libbsd0_0.12.2-2 libbz2-1.0_1.0.8-6 libbz2-dev_1.0.8-6 libc-bin_2.40-3 libc-dev-bin_2.40-3 libc6_2.40-3 libc6-arm64-cross_2.40-3cross1 libc6-dev_2.40-3 libc6-dev-arm64-cross_2.40-3cross1 libcap-ng0_0.8.5-3 libcap2_1:2.66-5+b1 libcc1-0_14.2.0-8 libcom-err2_1.47.1-1+b1 libcrypt-dev_1:4.4.36-5 libcrypt1_1:4.4.36-5 libctf-nobfd0_2.43.1-5 libctf0_2.43.1-5 libcurl3t64-gnutls_8.11.0-1 libcurl4-gnutls-dev_8.11.0-1 libdb5.3t64_5.3.28+dfsg2-9 libdebconfclient0_0.273 libdebhelper-perl_13.20 libdeflate-dev_1.22-1 libdeflate0_1.22-1 libdpkg-perl_1.22.11 libelf1t64_0.192-4 libevent-2.1-7t64_2.1.12-stable-10+b1 libext2fs2t64_1.47.1-1+b1 libfakeroot_1.36-1 libffi8_3.4.6-1 libfile-stripnondeterminism-perl_1.14.0-1 libgcc-14-dev_14.2.0-8 libgcc-14-dev-arm64-cross_14.2.0-6cross1 libgcc-s1_14.2.0-8 libgcc-s1-arm64-cross_14.2.0-6cross1 libgcrypt20_1.11.0-6 libgdbm-compat4t64_1.24-2 libgdbm6t64_1.24-2 libgmp-dev_2:6.3.0+dfsg-2+b2 libgmp10_2:6.3.0+dfsg-2+b2 libgmpxx4ldbl_2:6.3.0+dfsg-2+b2 libgnutls-dane0t64_3.8.8-2 libgnutls-openssl27t64_3.8.8-2 libgnutls28-dev_3.8.8-2 libgnutls30t64_3.8.8-2 libgomp1_14.2.0-8 libgomp1-arm64-cross_14.2.0-6cross1 libgpg-error0_1.50-4 libgprofng0_2.43.1-5 libgssapi-krb5-2_1.21.3-3 libgssrpc4t64_1.21.3-3 libhogweed6t64_3.10-1+b1 libhts-dev_1.20+ds-2 libhts3t64_1.20+ds-2 libhtscodecs2_1.6.1-1 libhwasan0_14.2.0-8 libhwasan0-arm64-cross_14.2.0-6cross1 libicu72_72.1-5+b1 libidn2-0_2.3.7-2+b1 libidn2-dev_2.3.7-2+b1 libisl23_0.27-1 libitm1_14.2.0-8 libitm1-arm64-cross_14.2.0-6cross1 libjansson4_2.14-2+b3 libk5crypto3_1.21.3-3 libkadm5clnt-mit12_1.21.3-3 libkadm5srv-mit12_1.21.3-3 libkdb5-10t64_1.21.3-3 libkeyutils1_1.6.3-4 libkrb5-3_1.21.3-3 libkrb5-dev_1.21.3-3 libkrb5support0_1.21.3-3 libldap-2.5-0_2.5.18+dfsg-3+b1 libldap-dev_2.5.18+dfsg-3+b1 liblsan0_14.2.0-8 liblsan0-arm64-cross_14.2.0-6cross1 liblz4-1_1.9.4-3+b1 liblzma-dev_5.6.3-1+b1 liblzma5_5.6.3-1+b1 libmagic-mgc_1:5.45-3+b1 libmagic1t64_1:5.45-3+b1 libmd0_1.1.0-2+b1 libmount1_2.40.2-10 libmpc3_1.3.1-1+b3 libmpfr6_4.2.1-1+b2 libnettle8t64_3.10-1+b1 libnghttp2-14_1.64.0-1 libnghttp2-dev_1.64.0-1 libnghttp3-9_1.4.0-1+b1 libnghttp3-dev_1.4.0-1+b1 libngtcp2-16_1.6.0-1 libngtcp2-crypto-gnutls-dev_1.6.0-1 libngtcp2-crypto-gnutls8_1.6.0-1 libngtcp2-dev_1.6.0-1 libp11-kit-dev_0.25.5-2+b1 libp11-kit0_0.25.5-2+b1 libpam-modules_1.5.3-7+b1 libpam-modules-bin_1.5.3-7+b1 libpam-runtime_1.5.3-7 libpam0g_1.5.3-7+b1 libpcre2-8-0_10.42-4+b2 libperl5.40_5.40.0-7 libpipeline1_1.5.8-1 libpkgconf3_1.8.1-4 libpsl-dev_0.21.2-1.1+b1 libpsl5t64_0.21.2-1.1+b1 libquadmath0_14.2.0-8 librtmp-dev_2.4+20151223.gitfa8646d.1-2+b5 librtmp1_2.4+20151223.gitfa8646d.1-2+b5 libsasl2-2_2.1.28+dfsg1-8 libsasl2-modules-db_2.1.28+dfsg1-8 libseccomp2_2.5.5-1+b2 libselinux1_3.7-3 libsemanage-common_3.7-2 libsemanage2_3.7-2 libsepol2_3.7-1 libsframe1_2.43.1-5 libsimde-dev_0.8.2-1 libsmartcols1_2.40.2-10 libss2_1.47.1-1+b1 libssh2-1-dev_1.11.1-1 libssh2-1t64_1.11.1-1 libssl-dev_3.3.2-2 libssl3t64_3.3.2-2 libstdc++-14-dev_14.2.0-8 libstdc++-14-dev-arm64-cross_14.2.0-6cross1 libstdc++6_14.2.0-8 libstdc++6-arm64-cross_14.2.0-6cross1 libsystemd0_257~rc1-4 libtasn1-6_4.19.0-3+b3 libtasn1-6-dev_4.19.0-3+b3 libtinfo6_6.5-2+b1 libtool_2.4.7-8 libtsan2_14.2.0-8 libtsan2-arm64-cross_14.2.0-6cross1 libubsan1_14.2.0-8 libubsan1-arm64-cross_14.2.0-6cross1 libuchardet0_0.0.8-1+b2 libudev1_257~rc1-4 libunbound8_1.22.0-1 libunistring5_1.2-1+b1 libuuid1_2.40.2-10 libxml2_2.12.7+dfsg+really2.9.14-0.2 libxxhash0_0.8.2-2+b2 libzstd-dev_1.5.6+dfsg-1+b1 libzstd1_1.5.6+dfsg-1+b1 linux-libc-dev_6.11.7-1 linux-libc-dev-arm64-cross_6.11.2-1cross1 login_1:4.16.0-2+really2.40.2-10 login.defs_1:4.16.0-4 logsave_1.47.1-1+b1 m4_1.4.19-4 make_4.3-4.1 man-db_2.13.0-1 mawk_1.3.4.20240905-1 mount_2.40.2-10 ncurses-base_6.5-2 ncurses-bin_6.5-2+b1 nettle-dev_3.10-1+b1 openssl-provider-legacy_3.3.2-2 passwd_1:4.16.0-4 patch_2.7.6-7 perl_5.40.0-7 perl-base_5.40.0-7 perl-modules-5.40_5.40.0-7 pkgconf_1.8.1-4 pkgconf-bin_1.8.1-4 po-debconf_1.0.21+nmu1 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.24 sysvinit-utils_3.11-1 tar_1.35+dfsg-3 tzdata_2024b-3 util-linux_2.40.2-10 xxd_2:9.1.0777-1+b1 xz-utils_5.6.3-1+b1 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: rna-star Binary: rna-star Architecture: any Version: 2.7.11b+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Andreas Tille , Sascha Steinbiss , Homepage: https://github.com/alexdobin/STAR/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/rna-star Vcs-Git: https://salsa.debian.org/med-team/rna-star.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), architecture-is-64-bit, architecture-is-little-endian, libhts-dev, xxd, zlib1g-dev, libsimde-dev Package-List: rna-star deb science optional arch=any Checksums-Sha1: afb7185ca0a5fb12a0997f2aa90081cd4dd33c03 520964 rna-star_2.7.11b+dfsg.orig.tar.xz 406387f790fbe4d63fa986c07011dfec6e9e9ee1 379364 rna-star_2.7.11b+dfsg-2.debian.tar.xz Checksums-Sha256: b06b9c0074fd7ab018edf7549582ee4ae29ed807aa8238811d888bf9ff73eaab 520964 rna-star_2.7.11b+dfsg.orig.tar.xz 972d0fc2daf285be69ca1ec15d876a29656a804c5f3d7f822a2c29dcfc47d167 379364 rna-star_2.7.11b+dfsg-2.debian.tar.xz Files: 003d1d688848cbc667285f514a8b62b5 520964 rna-star_2.7.11b+dfsg.orig.tar.xz 728a75d38a34c53ad8c277ad7c23626b 379364 rna-star_2.7.11b+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmcbrOkACgkQPCZ2P2xn 5uK/WRAAy35y/QHD4js7pRS7d7xeXzGigc9Ni/pmwz+ga6OrovVRTQvfMr1g742F CZMT/u1BxCdPmT2w1uDA2zsdS3Z4wEtWW56xH6FJFu3XIkClvk9qpFPtJp0IJkll 0uxps0Ft+3M2Acu9PNhCw3KW4V66OdH1eU4ElEOol9q3jpr3dbHfI7IlZqdnmpuk OSejorRELJxg0BWPeP29pHbmkpKk/svUlDI013Llo77tkzE3gAmqaoAD6wStvHWW MthI5eK5xCcuyFQfVe69uvu3Mmavgnm5dzWXTTFtJ6YCScgjSShu8TY7kYkc7CRU xosb0ZLM17t+O9OQe0wpb4UDmk7aHqSrTZdBv09QLGh4RJdZr5+EetrwF7OsNM5I l9XJru2sAjUHMMVfzN6ceO3YUOwZlKCpaSQ6kEbw5aVK3CUgIeglC6dCEv4aoKfO SUqps0V7vcxnM0gz8mEGzpXK88bKoLA2+/durZ3jOFRCPxUMv7iUMcTcugnDCim7 RKUn5qIkIAxtxe1XYOFCrbETq/2MtIHvCQhi4ES+HuI/Qai5Z2QwZlZY0jt1MFef H1KAIT89eT/U6dG/Kn05D5cQ+cOW8cYg8CbF+KAnzTbKE+1eiaqRBFljb5ZuPxgR XCiOqyVVVYwAmIVuCoGPBIu7Vkg1QV3ocPtsxB2HN0QXmhRvaDE= =vImF -----END PGP SIGNATURE----- gpgv: Signature made Fri Oct 25 14:36:25 2024 UTC gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./rna-star_2.7.11b+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting rna-star in /<> dpkg-source: info: unpacking rna-star_2.7.11b+dfsg.orig.tar.xz dpkg-source: info: unpacking rna-star_2.7.11b+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying donotuse_own_htslib.patch dpkg-source: info: applying mips_shm_noreserve.patch dpkg-source: info: applying reproducible.patch dpkg-source: info: applying mathRoutinesNotInScope.patch dpkg-source: info: applying do-not-enforce-avx2.patch dpkg-source: info: applying gcc-12.patch dpkg-source: info: applying packaged_simde dpkg-source: info: applying fix_typos.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.arm64 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=crossqa OLDPWD=/home/crossqa PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SBUILD_CONFIG=/tmp/tmp.2gkXINuY0C/sbuild.conf SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=sid-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=crossqa SCHROOT_SESSION_ID=sid-amd64-sbuild-b19ed71c-4144-4129-80b3-4f46c5ae15da SCHROOT_UID=1000 SCHROOT_USER=crossqa SHELL=/bin/sh USER=crossqa dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -aarm64 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package rna-star dpkg-buildpackage: info: source version 2.7.11b+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-architecture: warning: specified GNU system type aarch64-linux-gnu does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --sourcedirectory=source debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' cd source; /usr/bin/make clean make[2]: Entering directory '/<>/source' 'rm' -f *.o opal/opal.o STAR STARstatic STARlong Depend.list parametersDefault.xxd make[2]: Leaving directory '/<>/source' make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--sourcedirectory=source dh_clean -O--sourcedirectory=source debian/rules binary-arch dh binary-arch --sourcedirectory=source dh_update_autotools_config -a -O--sourcedirectory=source dh_autoreconf -a -O--sourcedirectory=source dh_auto_configure -a -O--sourcedirectory=source debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- CCFLAGS_common_add="-flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x" CCFLAGS="-flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x" LDFLAGS_add="-Wl,-z,relro -Wl,-z,now" STAR STARlong cd source && make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=aarch64-linux-gnu-pkg-config CXX=aarch64-linux-gnu-g\+\+ CC=aarch64-linux-gnu-gcc "CCFLAGS_common_add=-flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x" "CCFLAGS=-flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x" "LDFLAGS_add=-Wl,-z,relro -Wl,-z,now" STAR STARlong make[2]: Entering directory '/<>/source' xxd -i parametersDefault > parametersDefault.xxd echo BAMbinSortByCoordinate.cpp BAMbinSortUnmapped.cpp BAMfunctions.cpp BAMoutput.cpp Chain.cpp ChimericAlign.cpp ChimericAlign_chimericBAMoutput.cpp ChimericAlign_chimericJunctionOutput.cpp ChimericAlign_chimericStitching.cpp ChimericDetection.cpp ChimericDetection_chimericDetectionMult.cpp ChimericSegment.cpp ClipCR4.cpp ClipMate_clip.cpp ClipMate_clipChunk.cpp ClipMate_initialize.cpp ErrorWarning.cpp GTF.cpp GTF_superTranscript.cpp GTF_transcriptGeneSJ.cpp Genome.cpp Genome_genomeGenerate.cpp Genome_genomeLoad.cpp Genome_genomeOutLoad.cpp Genome_insertSequences.cpp Genome_transformGenome.cpp GlobalVariables.cpp InOutStreams.cpp OutSJ.cpp PackedArray.cpp Parameters.cpp ParametersChimeric_initialize.cpp ParametersClip_initialize.cpp ParametersGenome.cpp ParametersSolo.cpp Parameters_closeReadsFiles.cpp Parameters_openReadsFiles.cpp Parameters_readFilesInit.cpp Parameters_readSAMheader.cpp Parameters_samAttributes.cpp Quantifications.cpp ReadAlign.cpp ReadAlignChunk.cpp ReadAlignChunk_mapChunk.cpp ReadAlignChunk_processChunks.cpp ReadAlign_CIGAR.cpp ReadAlign_alignBAM.cpp ReadAlign_assignAlignToWindow.cpp ReadAlign_calcCIGAR.cpp ReadAlign_chimericDetection.cpp ReadAlign_chimericDetectionOld.cpp ReadAlign_chimericDetectionOldOutput.cpp ReadAlign_chimericDetectionPEmerged.cpp ReadAlign_createExtendWindowsWithAlign.cpp ReadAlign_mapOneRead.cpp ReadAlign_mapOneReadSpliceGraph.cpp ReadAlign_mappedFilter.cpp ReadAlign_maxMappableLength2strands.cpp ReadAlign_multMapSelect.cpp ReadAlign_oneRead.cpp ReadAlign_outputAlignments.cpp ReadAlign_outputSpliceGraphSAM.cpp ReadAlign_outputTranscriptCIGARp.cpp ReadAlign_outputTranscriptSAM.cpp ReadAlign_outputTranscriptSJ.cpp ReadAlign_outputVariation.cpp ReadAlign_peOverlapMergeMap.cpp ReadAlign_quantTranscriptome.cpp ReadAlign_stitchPieces.cpp ReadAlign_stitchWindowSeeds.cpp ReadAlign_storeAligns.cpp ReadAlign_transformGenome.cpp ReadAlign_waspMap.cpp STAR.cpp SequenceFuns.cpp SharedMemory.cpp Solo.cpp SoloBarcode.cpp SoloBarcode_extractBarcode.cpp SoloFeature.cpp SoloFeature_addBAMtags.cpp SoloFeature_cellFiltering.cpp SoloFeature_collapseUMI_Graph.cpp SoloFeature_collapseUMIall.cpp SoloFeature_countCBgeneUMI.cpp SoloFeature_countSmartSeq.cpp SoloFeature_countVelocyto.cpp SoloFeature_emptyDrops_CR.cpp SoloFeature_loadRawMatrix.cpp SoloFeature_outputResults.cpp SoloFeature_processRecords.cpp SoloFeature_quantTranscript.cpp SoloFeature_redistributeReadsByCB.cpp SoloFeature_statsOutput.cpp SoloFeature_sumThreads.cpp SoloRead.cpp SoloReadBarcode.cpp SoloReadBarcode_getCBandUMI.cpp SoloReadFeature.cpp SoloReadFeature_inputRecords.cpp SoloReadFeature_record.cpp SoloRead_record.cpp SpliceGraph.cpp SpliceGraph_findSuperTr.cpp SpliceGraph_swScoreSpliced.cpp SpliceGraph_swTraceBack.cpp Stats.cpp SuffixArrayFuns.cpp SuperTranscriptome.cpp ThreadControl.cpp TimeFunctions.cpp Transcript.cpp Transcript_alignScore.cpp Transcript_convertGenomeCigar.cpp Transcript_generateCigarP.cpp Transcript_transformGenome.cpp Transcript_variationAdjust.cpp Transcript_variationOutput.cpp Transcriptome.cpp Transcriptome_alignExonOverlap.cpp Transcriptome_classifyAlign.cpp Transcriptome_geneCountsAddAlign.cpp Transcriptome_geneFullAlignOverlap.cpp Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp Transcriptome_quantAlign.cpp Variation.cpp bamRemoveDuplicates.cpp bamSortByCoordinate.cpp binarySearch2.cpp blocksOverlap.cpp extendAlign.cpp funCompareUintAndSuffixes.cpp funCompareUintAndSuffixesMemcmp.cpp funPrimaryAlignMark.cpp genomeParametersWrite.cpp genomeSAindex.cpp genomeScanFastaFiles.cpp insertSeqSA.cpp mapThreadsSpawn.cpp outputSJ.cpp readLoad.cpp samHeaders.cpp serviceFuns.cpp signalFromBAM.cpp sjAlignSplit.cpp sjdbBuildIndex.cpp sjdbInsertJunctions.cpp sjdbLoadFromFiles.cpp sjdbLoadFromStream.cpp sjdbPrepare.cpp soloInputFeatureUMI.cpp stitchAlignToTranscript.cpp stitchGapIndel.cpp stitchWindowAligns.cpp streamFuns.cpp stringSubstituteAll.cpp sysRemoveDir.cpp systemFunctions.cpp twoPassRunPass1.cpp bam_cat.c BAMbinSortByCoordinate.cpp BAMbinSortUnmapped.cpp BAMfunctions.cpp BAMoutput.cpp Chain.cpp ChimericAlign.cpp ChimericAlign_chimericBAMoutput.cpp ChimericAlign_chimericJunctionOutput.cpp ChimericAlign_chimericStitching.cpp ChimericDetection.cpp ChimericDetection_chimericDetectionMult.cpp ChimericSegment.cpp ClipCR4.cpp ClipMate_clip.cpp ClipMate_clipChunk.cpp ClipMate_initialize.cpp ErrorWarning.cpp GTF.cpp GTF_superTranscript.cpp GTF_transcriptGeneSJ.cpp Genome.cpp Genome_genomeGenerate.cpp Genome_genomeLoad.cpp Genome_genomeOutLoad.cpp Genome_insertSequences.cpp Genome_transformGenome.cpp GlobalVariables.cpp InOutStreams.cpp OutSJ.cpp PackedArray.cpp Parameters.cpp ParametersChimeric_initialize.cpp ParametersClip_initialize.cpp ParametersGenome.cpp ParametersSolo.cpp Parameters_closeReadsFiles.cpp Parameters_openReadsFiles.cpp Parameters_readFilesInit.cpp Parameters_readSAMheader.cpp Parameters_samAttributes.cpp Quantifications.cpp ReadAlign.cpp ReadAlignChunk.cpp ReadAlignChunk_mapChunk.cpp ReadAlignChunk_processChunks.cpp ReadAlign_CIGAR.cpp ReadAlign_alignBAM.cpp ReadAlign_assignAlignToWindow.cpp ReadAlign_calcCIGAR.cpp ReadAlign_chimericDetection.cpp ReadAlign_chimericDetectionOld.cpp ReadAlign_chimericDetectionOldOutput.cpp ReadAlign_chimericDetectionPEmerged.cpp ReadAlign_createExtendWindowsWithAlign.cpp ReadAlign_mapOneRead.cpp ReadAlign_mapOneReadSpliceGraph.cpp ReadAlign_mappedFilter.cpp ReadAlign_maxMappableLength2strands.cpp ReadAlign_multMapSelect.cpp ReadAlign_oneRead.cpp ReadAlign_outputAlignments.cpp ReadAlign_outputSpliceGraphSAM.cpp ReadAlign_outputTranscriptCIGARp.cpp ReadAlign_outputTranscriptSAM.cpp ReadAlign_outputTranscriptSJ.cpp ReadAlign_outputVariation.cpp ReadAlign_peOverlapMergeMap.cpp ReadAlign_quantTranscriptome.cpp ReadAlign_stitchPieces.cpp ReadAlign_stitchWindowSeeds.cpp ReadAlign_storeAligns.cpp ReadAlign_transformGenome.cpp ReadAlign_waspMap.cpp STAR.cpp SequenceFuns.cpp SharedMemory.cpp Solo.cpp SoloBarcode.cpp SoloBarcode_extractBarcode.cpp SoloFeature.cpp SoloFeature_addBAMtags.cpp SoloFeature_cellFiltering.cpp SoloFeature_collapseUMI_Graph.cpp SoloFeature_collapseUMIall.cpp SoloFeature_countCBgeneUMI.cpp SoloFeature_countSmartSeq.cpp SoloFeature_countVelocyto.cpp SoloFeature_emptyDrops_CR.cpp SoloFeature_loadRawMatrix.cpp SoloFeature_outputResults.cpp SoloFeature_processRecords.cpp SoloFeature_quantTranscript.cpp SoloFeature_redistributeReadsByCB.cpp SoloFeature_statsOutput.cpp SoloFeature_sumThreads.cpp SoloRead.cpp SoloReadBarcode.cpp SoloReadBarcode_getCBandUMI.cpp SoloReadFeature.cpp SoloReadFeature_inputRecords.cpp SoloReadFeature_record.cpp SoloRead_record.cpp SpliceGraph.cpp SpliceGraph_findSuperTr.cpp SpliceGraph_swScoreSpliced.cpp SpliceGraph_swTraceBack.cpp Stats.cpp SuffixArrayFuns.cpp SuperTranscriptome.cpp ThreadControl.cpp TimeFunctions.cpp Transcript.cpp Transcript_alignScore.cpp Transcript_convertGenomeCigar.cpp Transcript_generateCigarP.cpp Transcript_transformGenome.cpp Transcript_variationAdjust.cpp Transcript_variationOutput.cpp Transcriptome.cpp Transcriptome_alignExonOverlap.cpp Transcriptome_classifyAlign.cpp Transcriptome_geneCountsAddAlign.cpp Transcriptome_geneFullAlignOverlap.cpp Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp Transcriptome_quantAlign.cpp Variation.cpp bamRemoveDuplicates.cpp bamSortByCoordinate.cpp binarySearch2.cpp blocksOverlap.cpp extendAlign.cpp funCompareUintAndSuffixes.cpp funCompareUintAndSuffixesMemcmp.cpp funPrimaryAlignMark.cpp genomeParametersWrite.cpp genomeSAindex.cpp genomeScanFastaFiles.cpp insertSeqSA.cpp mapThreadsSpawn.cpp outputSJ.cpp readLoad.cpp samHeaders.cpp serviceFuns.cpp signalFromBAM.cpp sjAlignSplit.cpp sjdbBuildIndex.cpp sjdbInsertJunctions.cpp sjdbLoadFromFiles.cpp sjdbLoadFromStream.cpp sjdbPrepare.cpp soloInputFeatureUMI.cpp stitchAlignToTranscript.cpp stitchGapIndel.cpp stitchWindowAligns.cpp streamFuns.cpp stringSubstituteAll.cpp sysRemoveDir.cpp systemFunctions.cpp twoPassRunPass1.cpp bam_cat.c 'rm' -f ./Depend.list aarch64-linux-gnu-g++ -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -MM BAMbinSortByCoordinate.cpp BAMbinSortUnmapped.cpp BAMfunctions.cpp BAMoutput.cpp Chain.cpp ChimericAlign.cpp ChimericAlign_chimericBAMoutput.cpp ChimericAlign_chimericJunctionOutput.cpp ChimericAlign_chimericStitching.cpp ChimericDetection.cpp ChimericDetection_chimericDetectionMult.cpp ChimericSegment.cpp ClipCR4.cpp ClipMate_clip.cpp ClipMate_clipChunk.cpp ClipMate_initialize.cpp ErrorWarning.cpp GTF.cpp GTF_superTranscript.cpp GTF_transcriptGeneSJ.cpp Genome.cpp Genome_genomeGenerate.cpp Genome_genomeLoad.cpp Genome_genomeOutLoad.cpp Genome_insertSequences.cpp Genome_transformGenome.cpp GlobalVariables.cpp InOutStreams.cpp OutSJ.cpp PackedArray.cpp Parameters.cpp ParametersChimeric_initialize.cpp ParametersClip_initialize.cpp ParametersGenome.cpp ParametersSolo.cpp Parameters_closeReadsFiles.cpp Parameters_openReadsFiles.cpp Parameters_readFilesInit.cpp Parameters_readSAMheader.cpp Parameters_samAttributes.cpp Quantifications.cpp ReadAlign.cpp ReadAlignChunk.cpp ReadAlignChunk_mapChunk.cpp ReadAlignChunk_processChunks.cpp ReadAlign_CIGAR.cpp ReadAlign_alignBAM.cpp ReadAlign_assignAlignToWindow.cpp ReadAlign_calcCIGAR.cpp ReadAlign_chimericDetection.cpp ReadAlign_chimericDetectionOld.cpp ReadAlign_chimericDetectionOldOutput.cpp ReadAlign_chimericDetectionPEmerged.cpp ReadAlign_createExtendWindowsWithAlign.cpp ReadAlign_mapOneRead.cpp ReadAlign_mapOneReadSpliceGraph.cpp ReadAlign_mappedFilter.cpp ReadAlign_maxMappableLength2strands.cpp ReadAlign_multMapSelect.cpp ReadAlign_oneRead.cpp ReadAlign_outputAlignments.cpp ReadAlign_outputSpliceGraphSAM.cpp ReadAlign_outputTranscriptCIGARp.cpp ReadAlign_outputTranscriptSAM.cpp ReadAlign_outputTranscriptSJ.cpp ReadAlign_outputVariation.cpp ReadAlign_peOverlapMergeMap.cpp ReadAlign_quantTranscriptome.cpp ReadAlign_stitchPieces.cpp ReadAlign_stitchWindowSeeds.cpp ReadAlign_storeAligns.cpp ReadAlign_transformGenome.cpp ReadAlign_waspMap.cpp STAR.cpp SequenceFuns.cpp SharedMemory.cpp Solo.cpp SoloBarcode.cpp SoloBarcode_extractBarcode.cpp SoloFeature.cpp SoloFeature_addBAMtags.cpp SoloFeature_cellFiltering.cpp SoloFeature_collapseUMI_Graph.cpp SoloFeature_collapseUMIall.cpp SoloFeature_countCBgeneUMI.cpp SoloFeature_countSmartSeq.cpp SoloFeature_countVelocyto.cpp SoloFeature_emptyDrops_CR.cpp SoloFeature_loadRawMatrix.cpp SoloFeature_outputResults.cpp SoloFeature_processRecords.cpp SoloFeature_quantTranscript.cpp SoloFeature_redistributeReadsByCB.cpp SoloFeature_statsOutput.cpp SoloFeature_sumThreads.cpp SoloRead.cpp SoloReadBarcode.cpp SoloReadBarcode_getCBandUMI.cpp SoloReadFeature.cpp SoloReadFeature_inputRecords.cpp SoloReadFeature_record.cpp SoloRead_record.cpp SpliceGraph.cpp SpliceGraph_findSuperTr.cpp SpliceGraph_swScoreSpliced.cpp SpliceGraph_swTraceBack.cpp Stats.cpp SuffixArrayFuns.cpp SuperTranscriptome.cpp ThreadControl.cpp TimeFunctions.cpp Transcript.cpp Transcript_alignScore.cpp Transcript_convertGenomeCigar.cpp Transcript_generateCigarP.cpp Transcript_transformGenome.cpp Transcript_variationAdjust.cpp Transcript_variationOutput.cpp Transcriptome.cpp Transcriptome_alignExonOverlap.cpp Transcriptome_classifyAlign.cpp Transcriptome_geneCountsAddAlign.cpp Transcriptome_geneFullAlignOverlap.cpp Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp Transcriptome_quantAlign.cpp Variation.cpp bamRemoveDuplicates.cpp bamSortByCoordinate.cpp binarySearch2.cpp blocksOverlap.cpp extendAlign.cpp funCompareUintAndSuffixes.cpp funCompareUintAndSuffixesMemcmp.cpp funPrimaryAlignMark.cpp genomeParametersWrite.cpp genomeSAindex.cpp genomeScanFastaFiles.cpp insertSeqSA.cpp mapThreadsSpawn.cpp outputSJ.cpp readLoad.cpp samHeaders.cpp serviceFuns.cpp signalFromBAM.cpp sjAlignSplit.cpp sjdbBuildIndex.cpp sjdbInsertJunctions.cpp sjdbLoadFromFiles.cpp sjdbLoadFromStream.cpp sjdbPrepare.cpp soloInputFeatureUMI.cpp stitchAlignToTranscript.cpp stitchGapIndel.cpp stitchWindowAligns.cpp streamFuns.cpp stringSubstituteAll.cpp sysRemoveDir.cpp systemFunctions.cpp twoPassRunPass1.cpp bam_cat.c parametersDefault.xxd >> Depend.list aarch64-linux-gnu-g++: warning: parametersDefault.xxd: linker input file unused because linking not done aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' systemFunctions.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' funPrimaryAlignMark.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_collapseUMI_Graph.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_collapseUMIall.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ParametersClip_initialize.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ClipMate_clip.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ClipCR4.cpp cd opal && \ aarch64-linux-gnu-g++ -c -I./ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 opal.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ClipMate_clipChunk.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ClipMate_initialize.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_loadRawMatrix.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_emptyDrops_CR.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' soloInputFeatureUMI.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_countSmartSeq.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_redistributeReadsByCB.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_quantTranscript.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_sumThreads.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_countVelocyto.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_countCBgeneUMI.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcriptome_classifyAlign.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_cellFiltering.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_statsOutput.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' bamSortByCoordinate.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloBarcode.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ParametersSolo.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloRead.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloRead_record.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloReadBarcode.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloReadBarcode_getCBandUMI.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloBarcode_extractBarcode.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloReadFeature.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloReadFeature_record.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloReadFeature_inputRecords.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Solo.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_outputResults.cpp SoloFeature_outputResults.cpp: In member function ‘void SoloFeature::outputResults(bool, std::string)’: SoloFeature_outputResults.cpp:51:23: warning: ignoring return value of ‘char* getcwd(char*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 51 | getcwd(cwd,4096); | ~~~~~~^~~~~~~~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_processRecords.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SoloFeature_addBAMtags.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_transformGenome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Genome_transformGenome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcript_convertGenomeCigar.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' twoPassRunPass1.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' samHeaders.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Genome_genomeLoad.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Genome_genomeOutLoad.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcript_transformGenome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_outputSpliceGraphSAM.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_mapOneReadSpliceGraph.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SpliceGraph.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SpliceGraph_swScoreSpliced.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SpliceGraph_swTraceBack.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SpliceGraph_findSuperTr.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' sjAlignSplit.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' GTF.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' GTF_transcriptGeneSJ.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' GTF_superTranscript.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SuperTranscriptome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_outputAlignments.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' STAR.cpp STAR.cpp: In function ‘int main(int, char**)’: STAR.cpp:225:19: warning: ignoring return value of ‘int bgzf_flush(BGZF*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 225 | bgzf_flush(P.inOut->outBAMfileUnsorted); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ STAR.cpp:230:19: warning: ignoring return value of ‘int bgzf_flush(BGZF*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 230 | bgzf_flush(P.inOut->outQuantBAMfile); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SharedMemory.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' PackedArray.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SuffixArrayFuns.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Parameters.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Parameters_samAttributes.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' InOutStreams.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' SequenceFuns.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Genome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ParametersGenome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Stats.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcript.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcript_alignScore.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcript_generateCigarP.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Chain.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcript_variationAdjust.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Variation.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_waspMap.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_storeAligns.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_stitchPieces.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_multMapSelect.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_mapOneRead.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' readLoad.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlignChunk.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlignChunk_processChunks.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlignChunk_mapChunk.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' OutSJ.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' outputSJ.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' blocksOverlap.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ThreadControl.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' sysRemoveDir.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_maxMappableLength2strands.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' binarySearch2.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_outputTranscriptSAM.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_outputTranscriptSJ.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_outputTranscriptCIGARp.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_createExtendWindowsWithAlign.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_assignAlignToWindow.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_oneRead.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_stitchWindowSeeds.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_peOverlapMergeMap.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_mappedFilter.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ParametersChimeric_initialize.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_chimericDetection.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_chimericDetectionOld.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_chimericDetectionOldOutput.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ChimericDetection.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ChimericDetection_chimericDetectionMult.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_chimericDetectionPEmerged.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' stitchWindowAligns.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' extendAlign.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' stitchAlignToTranscript.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ChimericAlign_chimericJunctionOutput.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ChimericAlign_chimericBAMoutput.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ChimericAlign_chimericStitching.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Genome_genomeGenerate.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' genomeParametersWrite.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' genomeScanFastaFiles.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' genomeSAindex.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Genome_insertSequences.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' insertSeqSA.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' funCompareUintAndSuffixes.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' funCompareUintAndSuffixesMemcmp.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' TimeFunctions.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ErrorWarning.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' streamFuns.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' stringSubstituteAll.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcriptome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcriptome_quantAlign.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcriptome_geneFullAlignOverlap.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_quantTranscriptome.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Quantifications.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Transcriptome_geneCountsAddAlign.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' sjdbLoadFromFiles.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' sjdbLoadFromStream.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' sjdbPrepare.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' sjdbBuildIndex.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' sjdbInsertJunctions.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' mapThreadsSpawn.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Parameters_readFilesInit.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' Parameters_readSAMheader.cpp Parameters_readSAMheader.cpp: In member function ‘void Parameters::readSAMheader(std::string, std::vector >)’: Parameters_readSAMheader.cpp:32:15: warning: ignoring return value of ‘int system(const char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 32 | system(com1.c_str()); | ~~~~~~^~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' bam_cat.c cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ bam_cat.c: In function ‘int bam_cat(int, char* const*, const bam_hdr_t*, const char*)’: bam_cat.c:80:25: warning: ignoring return value of ‘int bam_hdr_write(BGZF*, const sam_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 80 | if (h) bam_hdr_write(fp, h); | ~~~~~~~~~~~~~^~~~~~~ bam_cat.c:96:44: warning: ignoring return value of ‘int bam_hdr_write(BGZF*, const sam_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 96 | if (h == 0 && i == 0) bam_hdr_write(fp, old); | ~~~~~~~~~~~~~^~~~~~~~~ bam_cat.c:99:23: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 99 | bgzf_write(fp, (void*)((char*)in->uncompressed_block + in->block_offset), in->block_length - in->block_offset); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bam_cat.c:100:23: warning: ignoring return value of ‘int bgzf_flush(BGZF*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 100 | bgzf_flush(fp); | ~~~~~~~~~~^~~~ bam_cat.c:111:31: warning: ignoring return value of ‘ssize_t bgzf_raw_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 111 | bgzf_raw_write(fp, ebuf, len); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ bam_cat.c:115:40: warning: ignoring return value of ‘ssize_t bgzf_raw_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 115 | if(j!=0) bgzf_raw_write(fp, ebuf, es); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ bam_cat.c:118:31: warning: ignoring return value of ‘ssize_t bgzf_raw_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 118 | bgzf_raw_write(fp, buf, len); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ bam_cat.c:131:31: warning: ignoring return value of ‘ssize_t bgzf_raw_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 131 | bgzf_raw_write(fp, ebuf, es); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' serviceFuns.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' BAMoutput.cpp BAMoutput.cpp: In member function ‘void BAMoutput::unsortedOneAlign(char*, long long unsigned int, long long unsigned int)’: BAMoutput.cpp:59:19: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 59 | bgzf_write(bgzfBAM,bamArray,binBytes1); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAMoutput.cpp: In member function ‘void BAMoutput::unsortedFlush()’: BAMoutput.cpp:72:15: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 72 | bgzf_write(bgzfBAM,bamArray,binBytes1); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' BAMfunctions.cpp BAMfunctions.cpp: In function ‘void outBAMwriteHeader(BGZF*, const std::string&, const std::vector >&, const std::vector&)’: BAMfunctions.cpp:78:15: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 78 | bgzf_write(fp,"BAM\001",4); | ~~~~~~~~~~^~~~~~~~~~~~~~~~ BAMfunctions.cpp:80:15: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 80 | bgzf_write(fp,(char*) &hlen,sizeof(hlen)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAMfunctions.cpp:81:15: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 81 | bgzf_write(fp,samh.c_str(),hlen); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ BAMfunctions.cpp:83:15: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 83 | bgzf_write(fp,(char*) &nchr,sizeof(nchr)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAMfunctions.cpp:87:19: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 87 | bgzf_write(fp,(char*) &rlen,sizeof(rlen)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAMfunctions.cpp:88:19: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 88 | bgzf_write(fp,chrn.at(ii).data(),rlen); //this includes \0 at the end of the string | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAMfunctions.cpp:89:19: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 89 | bgzf_write(fp,(char*) &slen,sizeof(slen)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ BAMfunctions.cpp:91:15: warning: ignoring return value of ‘int bgzf_flush(BGZF*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 91 | bgzf_flush(fp); | ~~~~~~~~~~^~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' ReadAlign_alignBAM.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' BAMbinSortByCoordinate.cpp BAMbinSortByCoordinate.cpp: In function ‘void BAMbinSortByCoordinate(unsigned int, long long unsigned int, long long unsigned int, long long unsigned int, std::string, Parameters&, Genome&, Solo&)’: BAMbinSortByCoordinate.cpp:73:19: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 73 | bgzf_write(bgzfBin, bam0, size0); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ BAMbinSortByCoordinate.cpp:76:15: warning: ignoring return value of ‘int bgzf_flush(BGZF*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 76 | bgzf_flush(bgzfBin); | ~~~~~~~~~~^~~~~~~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' signalFromBAM.cpp aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' bamRemoveDuplicates.cpp bamRemoveDuplicates.cpp: In function ‘void bamRemoveDuplicates(std::string, std::string, Parameters&)’: bamRemoveDuplicates.cpp:130:18: warning: ignoring return value of ‘int bam_hdr_write(BGZF*, const sam_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 130 | bam_hdr_write(bgzfOut, bamHeader); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ bamRemoveDuplicates.cpp:157:27: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 157 | bgzf_write(bgzfOut,bamRaw,bamS); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ bamRemoveDuplicates.cpp:268:15: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 268 | bgzf_write(bgzfOut,bamRaw,bamLength); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ bamRemoveDuplicates.cpp:269:15: warning: ignoring return value of ‘int bgzf_flush(BGZF*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 269 | bgzf_flush(bgzfOut); | ~~~~~~~~~~^~~~~~~~~ aarch64-linux-gnu-g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' BAMbinSortUnmapped.cpp BAMbinSortUnmapped.cpp: In function ‘void BAMbinSortUnmapped(unsigned int, long long unsigned int, std::string, Parameters&, Genome&, Solo&)’: BAMbinSortUnmapped.cpp:62:23: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 62 | bgzf_write(bgzfBin, bam0, size0); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ BAMbinSortUnmapped.cpp:80:15: warning: ignoring return value of ‘int bgzf_flush(BGZF*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 80 | bgzf_flush(bgzfBin); | ~~~~~~~~~~^~~~~~~~~ aarch64-linux-gnu-g++ -o STAR -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 systemFunctions.o funPrimaryAlignMark.o SoloFeature_collapseUMI_Graph.o SoloFeature_collapseUMIall.o ParametersClip_initialize.o ClipMate_clip.o ClipCR4.o opal/opal.o ClipMate_clipChunk.o ClipMate_initialize.o SoloFeature_loadRawMatrix.o SoloFeature_emptyDrops_CR.o soloInputFeatureUMI.o SoloFeature_countSmartSeq.o SoloFeature_redistributeReadsByCB.o SoloFeature_quantTranscript.o SoloFeature_sumThreads.o SoloFeature_countVelocyto.o SoloFeature_countCBgeneUMI.o Transcriptome_classifyAlign.o Transcriptome_geneFullAlignOverlap_ExonOverIntron.o Transcriptome_alignExonOverlap.cpp SoloFeature_cellFiltering.o SoloFeature_statsOutput.o bamSortByCoordinate.o SoloBarcode.o ParametersSolo.o SoloRead.o SoloRead_record.o SoloReadBarcode.o SoloReadBarcode_getCBandUMI.o SoloBarcode_extractBarcode.o SoloReadFeature.o SoloReadFeature_record.o SoloReadFeature_inputRecords.o Solo.o SoloFeature.o SoloFeature_outputResults.o SoloFeature_processRecords.o SoloFeature_addBAMtags.o ReadAlign_transformGenome.o Genome_transformGenome.o Transcript_convertGenomeCigar.o twoPassRunPass1.o samHeaders.o Genome_genomeLoad.o Genome_genomeOutLoad.o Transcript_transformGenome.o ReadAlign_outputSpliceGraphSAM.o ReadAlign_mapOneReadSpliceGraph.o SpliceGraph.o SpliceGraph_swScoreSpliced.o SpliceGraph_swTraceBack.o SpliceGraph_findSuperTr.o sjAlignSplit.o GTF.o GTF_transcriptGeneSJ.o GTF_superTranscript.o SuperTranscriptome.o ReadAlign_outputAlignments.o ReadAlign.o STAR.o SharedMemory.o PackedArray.o SuffixArrayFuns.o Parameters.o Parameters_samAttributes.o InOutStreams.o SequenceFuns.o Genome.o ParametersGenome.o Stats.o Transcript.o Transcript_alignScore.o Transcript_generateCigarP.o Chain.o Transcript_variationAdjust.o Variation.o ReadAlign_waspMap.o ReadAlign_storeAligns.o ReadAlign_stitchPieces.o ReadAlign_multMapSelect.o ReadAlign_mapOneRead.o readLoad.o ReadAlignChunk.o ReadAlignChunk_processChunks.o ReadAlignChunk_mapChunk.o OutSJ.o outputSJ.o blocksOverlap.o ThreadControl.o sysRemoveDir.o ReadAlign_maxMappableLength2strands.o binarySearch2.o ReadAlign_outputTranscriptSAM.o ReadAlign_outputTranscriptSJ.o ReadAlign_outputTranscriptCIGARp.o ReadAlign_calcCIGAR.cpp ReadAlign_createExtendWindowsWithAlign.o ReadAlign_assignAlignToWindow.o ReadAlign_oneRead.o ReadAlign_stitchWindowSeeds.o ReadAlign_peOverlapMergeMap.o ReadAlign_mappedFilter.o ParametersChimeric_initialize.o ReadAlign_chimericDetection.o ReadAlign_chimericDetectionOld.o ReadAlign_chimericDetectionOldOutput.o ChimericDetection.o ChimericDetection_chimericDetectionMult.o ReadAlign_chimericDetectionPEmerged.o stitchWindowAligns.o extendAlign.o stitchAlignToTranscript.o ChimericSegment.cpp ChimericAlign.cpp ChimericAlign_chimericJunctionOutput.o ChimericAlign_chimericBAMoutput.o ChimericAlign_chimericStitching.o Genome_genomeGenerate.o genomeParametersWrite.o genomeScanFastaFiles.o genomeSAindex.o Genome_insertSequences.o insertSeqSA.o funCompareUintAndSuffixes.o funCompareUintAndSuffixesMemcmp.o TimeFunctions.o ErrorWarning.o streamFuns.o stringSubstituteAll.o Transcriptome.o Transcriptome_quantAlign.o Transcriptome_geneFullAlignOverlap.o ReadAlign_quantTranscriptome.o Quantifications.o Transcriptome_geneCountsAddAlign.o sjdbLoadFromFiles.o sjdbLoadFromStream.o sjdbPrepare.o sjdbBuildIndex.o sjdbInsertJunctions.o mapThreadsSpawn.o Parameters_readFilesInit.o Parameters_openReadsFiles.cpp Parameters_closeReadsFiles.cpp Parameters_readSAMheader.o bam_cat.o serviceFuns.o GlobalVariables.cpp BAMoutput.o BAMfunctions.o ReadAlign_alignBAM.o BAMbinSortByCoordinate.o signalFromBAM.o bamRemoveDuplicates.o BAMbinSortUnmapped.o -pthread -lhts -Bdynamic -lz -Wl,-z,relro -Wl,-z,now lto-wrapper: warning: using serial compilation of 20 LTRANS jobs lto-wrapper: note: see the ‘-flto’ option documentation for more information In function ‘opalSearchDatabase’, inlined from ‘opalAlign’ at ClipCR4.cpp:77:23, inlined from ‘clipChunk’ at ClipMate_clipChunk.cpp:41:23, inlined from ‘mapChunk’ at ReadAlignChunk_mapChunk.cpp:10:39: opal/opal.cpp:1450:35: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1450 | bool *skip = new bool[dbLength]; | ^ /usr/aarch64-linux-gnu/include/c++/14/new: In member function ‘mapChunk’: /usr/aarch64-linux-gnu/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ BAMbinSortUnmapped.cpp: In function ‘BAMbinSortUnmapped’: BAMbinSortUnmapped.cpp:30:59: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 30 | ifstream *bamInStream = new ifstream [bamInFile.size()]; | ^ /usr/aarch64-linux-gnu/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ aarch64-linux-gnu-g++ -o STARlong -O3 -std=c++11 -fopenmp -D'COMPILATION_TIME_PLACE="2024-10-25T14:34:57+00:00 "' -flto -flto -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++0x -D'COMPILE_FOR_LONG_READS' -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 systemFunctions.o funPrimaryAlignMark.o SoloFeature_collapseUMI_Graph.o SoloFeature_collapseUMIall.o ParametersClip_initialize.o ClipMate_clip.o ClipCR4.o opal/opal.o ClipMate_clipChunk.o ClipMate_initialize.o SoloFeature_loadRawMatrix.o SoloFeature_emptyDrops_CR.o soloInputFeatureUMI.o SoloFeature_countSmartSeq.o SoloFeature_redistributeReadsByCB.o SoloFeature_quantTranscript.o SoloFeature_sumThreads.o SoloFeature_countVelocyto.o SoloFeature_countCBgeneUMI.o Transcriptome_classifyAlign.o Transcriptome_geneFullAlignOverlap_ExonOverIntron.o Transcriptome_alignExonOverlap.cpp SoloFeature_cellFiltering.o SoloFeature_statsOutput.o bamSortByCoordinate.o SoloBarcode.o ParametersSolo.o SoloRead.o SoloRead_record.o SoloReadBarcode.o SoloReadBarcode_getCBandUMI.o SoloBarcode_extractBarcode.o SoloReadFeature.o SoloReadFeature_record.o SoloReadFeature_inputRecords.o Solo.o SoloFeature.o SoloFeature_outputResults.o SoloFeature_processRecords.o SoloFeature_addBAMtags.o ReadAlign_transformGenome.o Genome_transformGenome.o Transcript_convertGenomeCigar.o twoPassRunPass1.o samHeaders.o Genome_genomeLoad.o Genome_genomeOutLoad.o Transcript_transformGenome.o ReadAlign_outputSpliceGraphSAM.o ReadAlign_mapOneReadSpliceGraph.o SpliceGraph.o SpliceGraph_swScoreSpliced.o SpliceGraph_swTraceBack.o SpliceGraph_findSuperTr.o sjAlignSplit.o GTF.o GTF_transcriptGeneSJ.o GTF_superTranscript.o SuperTranscriptome.o ReadAlign_outputAlignments.o ReadAlign.o STAR.o SharedMemory.o PackedArray.o SuffixArrayFuns.o Parameters.o Parameters_samAttributes.o InOutStreams.o SequenceFuns.o Genome.o ParametersGenome.o Stats.o Transcript.o Transcript_alignScore.o Transcript_generateCigarP.o Chain.o Transcript_variationAdjust.o Variation.o ReadAlign_waspMap.o ReadAlign_storeAligns.o ReadAlign_stitchPieces.o ReadAlign_multMapSelect.o ReadAlign_mapOneRead.o readLoad.o ReadAlignChunk.o ReadAlignChunk_processChunks.o ReadAlignChunk_mapChunk.o OutSJ.o outputSJ.o blocksOverlap.o ThreadControl.o sysRemoveDir.o ReadAlign_maxMappableLength2strands.o binarySearch2.o ReadAlign_outputTranscriptSAM.o ReadAlign_outputTranscriptSJ.o ReadAlign_outputTranscriptCIGARp.o ReadAlign_calcCIGAR.cpp ReadAlign_createExtendWindowsWithAlign.o ReadAlign_assignAlignToWindow.o ReadAlign_oneRead.o ReadAlign_stitchWindowSeeds.o ReadAlign_peOverlapMergeMap.o ReadAlign_mappedFilter.o ParametersChimeric_initialize.o ReadAlign_chimericDetection.o ReadAlign_chimericDetectionOld.o ReadAlign_chimericDetectionOldOutput.o ChimericDetection.o ChimericDetection_chimericDetectionMult.o ReadAlign_chimericDetectionPEmerged.o stitchWindowAligns.o extendAlign.o stitchAlignToTranscript.o ChimericSegment.cpp ChimericAlign.cpp ChimericAlign_chimericJunctionOutput.o ChimericAlign_chimericBAMoutput.o ChimericAlign_chimericStitching.o Genome_genomeGenerate.o genomeParametersWrite.o genomeScanFastaFiles.o genomeSAindex.o Genome_insertSequences.o insertSeqSA.o funCompareUintAndSuffixes.o funCompareUintAndSuffixesMemcmp.o TimeFunctions.o ErrorWarning.o streamFuns.o stringSubstituteAll.o Transcriptome.o Transcriptome_quantAlign.o Transcriptome_geneFullAlignOverlap.o ReadAlign_quantTranscriptome.o Quantifications.o Transcriptome_geneCountsAddAlign.o sjdbLoadFromFiles.o sjdbLoadFromStream.o sjdbPrepare.o sjdbBuildIndex.o sjdbInsertJunctions.o mapThreadsSpawn.o Parameters_readFilesInit.o Parameters_openReadsFiles.cpp Parameters_closeReadsFiles.cpp Parameters_readSAMheader.o bam_cat.o serviceFuns.o GlobalVariables.cpp BAMoutput.o BAMfunctions.o ReadAlign_alignBAM.o BAMbinSortByCoordinate.o signalFromBAM.o bamRemoveDuplicates.o BAMbinSortUnmapped.o -pthread -lhts -Bdynamic -lz -Wl,-z,relro -Wl,-z,now Transcript.h:10:7: warning: type ‘struct Transcript’ violates the C++ One Definition Rule [-Wodr] 10 | class Transcript { | ^ Transcript.h:10:7: note: a different type is defined in another translation unit 10 | class Transcript { | ^ Transcript.h:12:10: note: the first difference of corresponding definitions is field ‘exons’ 12 | uint exons[MAX_N_EXONS][EX_SIZE]; //coordinates of all exons: r-start, g-start, length | ^ Transcript.h:12:10: note: a field of same name but different type is defined in another translation unit 12 | uint exons[MAX_N_EXONS][EX_SIZE]; //coordinates of all exons: r-start, g-start, length | ^ Transcript.h:10:7: note: array types have different bounds 10 | class Transcript { | ^ ReadAlign.h:22:7: warning: type ‘struct ReadAlign’ violates the C++ One Definition Rule [-Wodr] 22 | class ReadAlign { | ^ ReadAlign.h:22:7: note: a different type is defined in another translation unit 22 | class ReadAlign { | ^ ReadAlign.h:57:20: note: the first difference of corresponding definitions is field ‘trA’ 57 | Transcript trA, trA1, *trInit; //transcript, best tr, next best tr, initialized tr | ^ ReadAlign.h:57:20: note: a field of same name but different type is defined in another translation unit 57 | Transcript trA, trA1, *trInit; //transcript, best tr, next best tr, initialized tr | ^ Transcript.h:10:7: note: type ‘struct Transcript’ itself violates the C++ One Definition Rule 10 | class Transcript { | ^ ReadAlign.h:214:14: warning: type of ‘calcCIGAR’ does not match original declaration [-Wlto-type-mismatch] 214 | void calcCIGAR(Transcript const &trOut, uint nMates, uint iExMate, uint leftMate); | ^ ReadAlign_calcCIGAR.cpp:3:6: note: ‘calcCIGAR’ was previously declared here 3 | void ReadAlign::calcCIGAR(Transcript const &trOut, uint nMates, uint iExMate, uint leftMate) { | ^ lto-wrapper: warning: using serial compilation of 20 LTRANS jobs lto-wrapper: note: see the ‘-flto’ option documentation for more information In function ‘opalSearchDatabase’, inlined from ‘opalAlign’ at ClipCR4.cpp:77:23, inlined from ‘clipChunk’ at ClipMate_clipChunk.cpp:41:23, inlined from ‘mapChunk’ at ReadAlignChunk_mapChunk.cpp:10:39: opal/opal.cpp:1450:35: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1450 | bool *skip = new bool[dbLength]; | ^ /usr/aarch64-linux-gnu/include/c++/14/new: In member function ‘mapChunk’: /usr/aarch64-linux-gnu/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ BAMbinSortUnmapped.cpp: In function ‘BAMbinSortUnmapped’: BAMbinSortUnmapped.cpp:30:59: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 30 | ifstream *bamInStream = new ifstream [bamInFile.size()]; | ^ /usr/aarch64-linux-gnu/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/<>/source' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--sourcedirectory=source dh_prep -a -O--sourcedirectory=source debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_install source/STAR source/STARlong usr/bin/ make[1]: Leaving directory '/<>' dh_installdocs -a -O--sourcedirectory=source dh_installchangelogs -a -O--sourcedirectory=source dh_installman -a -O--sourcedirectory=source dh_installsystemduser -a -O--sourcedirectory=source dh_perl -a -O--sourcedirectory=source dh_link -a -O--sourcedirectory=source dh_strip_nondeterminism -a -O--sourcedirectory=source debian/rules override_dh_compress make[1]: Entering directory '/<>' dh_compress --exclude=.pdf make[1]: Leaving directory '/<>' dh_fixperms -a -O--sourcedirectory=source dh_missing -a -O--sourcedirectory=source dh_dwz -a -O--sourcedirectory=source dh_strip -a -O--sourcedirectory=source dh_makeshlibs -a -O--sourcedirectory=source dh_shlibdeps -a -O--sourcedirectory=source dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -a -O--sourcedirectory=source debian/rules override_dh_gencontrol make[1]: Entering directory '/<>' dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.8.2-1), " make[1]: Leaving directory '/<>' dh_md5sums -a -O--sourcedirectory=source dh_builddeb -a -O--sourcedirectory=source dpkg-deb: building package 'rna-star' in '../rna-star_2.7.11b+dfsg-2_arm64.deb'. dpkg-deb: building package 'rna-star-dbgsym' in '../rna-star-dbgsym_2.7.11b+dfsg-2_arm64.deb'. dpkg-genbuildinfo --build=any -O../rna-star_2.7.11b+dfsg-2_arm64.buildinfo dpkg-genchanges --build=any -O../rna-star_2.7.11b+dfsg-2_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2024-11-13T07:04:04Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ rna-star_2.7.11b+dfsg-2_arm64.changes: -------------------------------------- Format: 1.8 Date: Fri, 25 Oct 2024 16:34:57 +0200 Source: rna-star Binary: rna-star rna-star-dbgsym Built-For-Profiles: cross nocheck Architecture: arm64 Version: 2.7.11b+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: rna-star - ultrafast universal RNA-seq aligner Changes: rna-star (2.7.11b+dfsg-2) unstable; urgency=medium . * Team upload. * d/control: simplify Aritechture selection via the provisions from the architecture-properties package. * d/rules: fix typo that was affecting the reprotest when the shell was set to Bash. * d/rules: fix dh_auto_clean. 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Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: rna-star Binary: rna-star rna-star-dbgsym Architecture: arm64 Version: 2.7.11b+dfsg-2 Checksums-Md5: 65bdea33161db6d3ef0d9ef96031bf29 17521160 rna-star-dbgsym_2.7.11b+dfsg-2_arm64.deb 2ad79ee800701f86101678f1cf9aaf0c 728068 rna-star_2.7.11b+dfsg-2_arm64.deb Checksums-Sha1: c5e5fe832fde54d5720c207680046b6b8eb59f6f 17521160 rna-star-dbgsym_2.7.11b+dfsg-2_arm64.deb c596958ffba67a7fb26d3cb32c99c0e049e72874 728068 rna-star_2.7.11b+dfsg-2_arm64.deb Checksums-Sha256: 0d018e4519e8590f2c94a519581eb245e457c8bd5d358bba0699f6f41aa70896 17521160 rna-star-dbgsym_2.7.11b+dfsg-2_arm64.deb de3b56d45c490fe401a2630861a7307f6a8e927bc95c3675e1aa8cf022d5a365 728068 rna-star_2.7.11b+dfsg-2_arm64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Wed, 13 Nov 2024 07:04:04 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs Installed-Build-Depends: architecture-properties (= 0.2.3), autoconf (= 2.72-3), automake (= 1:1.16.5-1.3), autopoint (= 0.22.5-2), autotools-dev (= 20220109.1), base-files (= 13.5), base-passwd (= 3.6.5), bash (= 5.2.32-1+b2), binutils (= 2.43.1-5), binutils-common (= 2.43.1-5), binutils-x86-64-linux-gnu (= 2.43.1-5), bsdextrautils (= 2.40.2-10), bsdutils (= 1:2.40.2-10), build-essential (= 12.12), bzip2 (= 1.0.8-6), comerr-dev (= 2.1-1.47.1-1+b1), coreutils (= 9.5-1+b1), cpp (= 4:14.2.0-1), cpp-14 (= 14.2.0-8), cpp-14-x86-64-linux-gnu (= 14.2.0-8), cpp-x86-64-linux-gnu (= 4:14.2.0-1), dash (= 0.5.12-9), debconf (= 1.5.87), debhelper (= 13.20), debianutils (= 5.20), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.0-1), diffutils (= 1:3.10-1), dpkg (= 1.22.11), dpkg-dev (= 1.22.11), dwz (= 0.15-1+b1), file (= 1:5.45-3+b1), findutils (= 4.10.0-3), g++ (= 4:14.2.0-1), g++-14 (= 14.2.0-8), g++-14-x86-64-linux-gnu (= 14.2.0-8), g++-x86-64-linux-gnu (= 4:14.2.0-1), gcc (= 4:14.2.0-1), gcc-14 (= 14.2.0-8), gcc-14-base (= 14.2.0-8), gcc-14-x86-64-linux-gnu (= 14.2.0-8), gcc-x86-64-linux-gnu (= 4:14.2.0-1), gettext (= 0.22.5-2), gettext-base (= 0.22.5-2), grep (= 3.11-4), groff-base (= 1.23.0-5), gzip (= 1.12-1.1), hostname (= 3.25), init-system-helpers (= 1.67), intltool-debian (= 0.35.0+20060710.6), krb5-multidev (= 1.21.3-3), libacl1 (= 2.3.2-2+b1), libarchive-zip-perl (= 1.68-1), libasan8 (= 14.2.0-8), libatomic1 (= 14.2.0-8), libattr1 (= 1:2.5.2-2), libaudit-common (= 1:4.0.2-1), libaudit1 (= 1:4.0.2-1), libbinutils (= 2.43.1-5), libblkid1 (= 2.40.2-10), libbrotli-dev (= 1.1.0-2+b5), libbrotli1 (= 1.1.0-2+b5), libbz2-1.0 (= 1.0.8-6), libbz2-dev (= 1.0.8-6), libc-bin (= 2.40-3), libc-dev-bin (= 2.40-3), libc6 (= 2.40-3), libc6-dev (= 2.40-3), libcap-ng0 (= 0.8.5-3), libcap2 (= 1:2.66-5+b1), libcc1-0 (= 14.2.0-8), libcom-err2 (= 1.47.1-1+b1), libcrypt-dev (= 1:4.4.36-5), libcrypt1 (= 1:4.4.36-5), libctf-nobfd0 (= 2.43.1-5), libctf0 (= 2.43.1-5), libcurl3t64-gnutls (= 8.11.0-1), libcurl4-gnutls-dev (= 8.11.0-1), libdb5.3t64 (= 5.3.28+dfsg2-9), libdebconfclient0 (= 0.273), libdebhelper-perl (= 13.20), libdeflate-dev (= 1.22-1), libdeflate0 (= 1.22-1), libdpkg-perl (= 1.22.11), libelf1t64 (= 0.192-4), libevent-2.1-7t64 (= 2.1.12-stable-10+b1), libffi8 (= 3.4.6-1), libfile-stripnondeterminism-perl (= 1.14.0-1), libgcc-14-dev (= 14.2.0-8), libgcc-s1 (= 14.2.0-8), libgdbm-compat4t64 (= 1.24-2), libgdbm6t64 (= 1.24-2), libgmp-dev (= 2:6.3.0+dfsg-2+b2), libgmp10 (= 2:6.3.0+dfsg-2+b2), libgmpxx4ldbl (= 2:6.3.0+dfsg-2+b2), libgnutls-dane0t64 (= 3.8.8-2), libgnutls-openssl27t64 (= 3.8.8-2), libgnutls28-dev (= 3.8.8-2), libgnutls30t64 (= 3.8.8-2), libgomp1 (= 14.2.0-8), libgprofng0 (= 2.43.1-5), libgssapi-krb5-2 (= 1.21.3-3), libgssrpc4t64 (= 1.21.3-3), libhogweed6t64 (= 3.10-1+b1), libhts-dev (= 1.20+ds-2), libhts3t64 (= 1.20+ds-2), libhtscodecs2 (= 1.6.1-1), libhwasan0 (= 14.2.0-8), libicu72 (= 72.1-5+b1), libidn2-0 (= 2.3.7-2+b1), libidn2-dev (= 2.3.7-2+b1), libisl23 (= 0.27-1), libitm1 (= 14.2.0-8), libjansson4 (= 2.14-2+b3), libk5crypto3 (= 1.21.3-3), libkadm5clnt-mit12 (= 1.21.3-3), libkadm5srv-mit12 (= 1.21.3-3), libkdb5-10t64 (= 1.21.3-3), libkeyutils1 (= 1.6.3-4), libkrb5-3 (= 1.21.3-3), libkrb5-dev (= 1.21.3-3), libkrb5support0 (= 1.21.3-3), libldap-2.5-0 (= 2.5.18+dfsg-3+b1), libldap-dev (= 2.5.18+dfsg-3+b1), liblsan0 (= 14.2.0-8), liblzma-dev (= 5.6.3-1+b1), liblzma5 (= 5.6.3-1+b1), libmagic-mgc (= 1:5.45-3+b1), libmagic1t64 (= 1:5.45-3+b1), libmd0 (= 1.1.0-2+b1), libmount1 (= 2.40.2-10), libmpc3 (= 1.3.1-1+b3), libmpfr6 (= 4.2.1-1+b2), libnettle8t64 (= 3.10-1+b1), libnghttp2-14 (= 1.64.0-1), libnghttp2-dev (= 1.64.0-1), libnghttp3-9 (= 1.4.0-1+b1), libnghttp3-dev (= 1.4.0-1+b1), libngtcp2-16 (= 1.6.0-1), libngtcp2-crypto-gnutls-dev (= 1.6.0-1), libngtcp2-crypto-gnutls8 (= 1.6.0-1), libngtcp2-dev (= 1.6.0-1), libp11-kit-dev (= 0.25.5-2+b1), libp11-kit0 (= 0.25.5-2+b1), libpam-modules (= 1.5.3-7+b1), libpam-modules-bin (= 1.5.3-7+b1), libpam-runtime (= 1.5.3-7), libpam0g (= 1.5.3-7+b1), libpcre2-8-0 (= 10.42-4+b2), libperl5.40 (= 5.40.0-7), libpipeline1 (= 1.5.8-1), libpkgconf3 (= 1.8.1-4), libpsl-dev (= 0.21.2-1.1+b1), libpsl5t64 (= 0.21.2-1.1+b1), libquadmath0 (= 14.2.0-8), librtmp-dev (= 2.4+20151223.gitfa8646d.1-2+b5), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b5), libsasl2-2 (= 2.1.28+dfsg1-8), libsasl2-modules-db (= 2.1.28+dfsg1-8), libseccomp2 (= 2.5.5-1+b2), libselinux1 (= 3.7-3), libsframe1 (= 2.43.1-5), libsimde-dev (= 0.8.2-1), libsmartcols1 (= 2.40.2-10), libssh2-1-dev (= 1.11.1-1), libssh2-1t64 (= 1.11.1-1), libssl-dev (= 3.3.2-2), libssl3t64 (= 3.3.2-2), libstdc++-14-dev (= 14.2.0-8), libstdc++6 (= 14.2.0-8), libsystemd0 (= 257~rc1-4), libtasn1-6 (= 4.19.0-3+b3), libtasn1-6-dev (= 4.19.0-3+b3), libtinfo6 (= 6.5-2+b1), libtool (= 2.4.7-8), libtsan2 (= 14.2.0-8), libubsan1 (= 14.2.0-8), libuchardet0 (= 0.0.8-1+b2), libudev1 (= 257~rc1-4), libunbound8 (= 1.22.0-1), libunistring5 (= 1.2-1+b1), libuuid1 (= 2.40.2-10), libxml2 (= 2.12.7+dfsg+really2.9.14-0.2), libzstd-dev (= 1.5.6+dfsg-1+b1), libzstd1 (= 1.5.6+dfsg-1+b1), linux-libc-dev (= 6.11.7-1), m4 (= 1.4.19-4), make (= 4.3-4.1), man-db (= 2.13.0-1), mawk (= 1.3.4.20240905-1), ncurses-base (= 6.5-2), ncurses-bin (= 6.5-2+b1), nettle-dev (= 3.10-1+b1), openssl-provider-legacy (= 3.3.2-2), patch (= 2.7.6-7), perl (= 5.40.0-7), perl-base (= 5.40.0-7), perl-modules-5.40 (= 5.40.0-7), pkgconf (= 1.8.1-4), pkgconf-bin (= 1.8.1-4), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.24), sysvinit-utils (= 3.11-1), tar (= 1.35+dfsg-3), util-linux (= 2.40.2-10), xxd (= 2:9.1.0777-1+b1), xz-utils (= 5.6.3-1+b1), zlib1g (= 1:1.3.dfsg+really1.3.1-1+b1), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1+b1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1729866897" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ rna-star-dbgsym_2.7.11b+dfsg-2_arm64.deb ---------------------------------------- new Debian package, version 2.0. size 17521160 bytes: control archive=652 bytes. 431 bytes, 12 lines control 298 bytes, 3 lines md5sums Package: rna-star-dbgsym Source: rna-star Version: 2.7.11b+dfsg-2 Auto-Built-Package: debug-symbols Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 18330 Depends: rna-star (= 2.7.11b+dfsg-2) Section: debug Priority: optional Description: debug symbols for rna-star Build-Ids: 88c91e4c14f62d4c5a11fe6dc243cf4ed80adf1b 8c9112086e50bb015cbf137911997dab54893d23 drwxr-xr-x root/root 0 2024-10-25 14:34 ./ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/lib/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/lib/debug/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/lib/debug/.build-id/88/ -rw-r--r-- root/root 6025608 2024-10-25 14:34 ./usr/lib/debug/.build-id/88/c91e4c14f62d4c5a11fe6dc243cf4ed80adf1b.debug drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/lib/debug/.build-id/8c/ -rw-r--r-- root/root 6026120 2024-10-25 14:34 ./usr/lib/debug/.build-id/8c/9112086e50bb015cbf137911997dab54893d23.debug drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/lib/debug/.dwz/aarch64-linux-gnu/ -rw-r--r-- root/root 6703656 2024-10-25 14:34 ./usr/lib/debug/.dwz/aarch64-linux-gnu/rna-star.debug drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/doc/ lrwxrwxrwx root/root 0 2024-10-25 14:34 ./usr/share/doc/rna-star-dbgsym -> rna-star rna-star_2.7.11b+dfsg-2_arm64.deb --------------------------------- new Debian package, version 2.0. size 728068 bytes: control archive=1464 bytes. 1406 bytes, 25 lines control 732 bytes, 11 lines md5sums Package: rna-star Version: 2.7.11b+dfsg-2 Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 2699 Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.3.1), libgomp1 (>= 6), libhts3t64 (>= 1.17), libstdc++6 (>= 14) Built-Using: simde (= 0.8.2-1) Section: science Priority: optional Homepage: https://github.com/alexdobin/STAR/ Description: ultrafast universal RNA-seq aligner Spliced Transcripts Alignment to a Reference (STAR) software based on a previously undescribed RNA-seq alignment algorithm that uses sequential maximum mappable seed search in uncompressed suffix arrays followed by seed clustering and stitching procedure. STAR outperforms other aligners by a factor of >50 in mapping speed, aligning to the human genome 550 million 2 × 76 bp paired-end reads per hour on a modest 12-core server, while at the same time improving alignment sensitivity and precision. In addition to unbiased de novo detection of canonical junctions, STAR can discover non-canonical splices and chimeric (fusion) transcripts, and is also capable of mapping full-length RNA sequences. Using Roche 454 sequencing of reverse transcription polymerase chain reaction amplicons, the authors experimentally validated 1960 novel intergenic splice junctions with an 80-90% success rate, corroborating the high precision of the STAR mapping strategy. drwxr-xr-x root/root 0 2024-10-25 14:34 ./ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/bin/ -rwxr-xr-x root/root 1237624 2024-10-25 14:34 ./usr/bin/STAR -rwxr-xr-x root/root 1237624 2024-10-25 14:34 ./usr/bin/STARlong drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/doc-base/ -rw-r--r-- root/root 1179 2024-10-25 14:33 ./usr/share/doc-base/rna-star.rna-star drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/doc/rna-star/ -rw-r--r-- root/root 220 2024-10-25 14:33 ./usr/share/doc/rna-star/README.Debian -rw-r--r-- root/root 3547 2024-01-25 21:55 ./usr/share/doc/rna-star/README.md -rw-r--r-- root/root 7407 2024-01-25 21:55 ./usr/share/doc/rna-star/RELEASEnotes.md.gz -rw-r--r-- root/root 239211 2024-01-25 21:55 ./usr/share/doc/rna-star/STARmanual.pdf -rw-r--r-- root/root 2304 2024-10-25 14:34 ./usr/share/doc/rna-star/changelog.Debian.gz -rw-r--r-- root/root 15091 2024-01-25 21:55 ./usr/share/doc/rna-star/changelog.gz -rw-r--r-- root/root 2606 2024-10-25 14:34 ./usr/share/doc/rna-star/copyright drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/man/ drwxr-xr-x root/root 0 2024-10-25 14:34 ./usr/share/man/man1/ -rw-r--r-- root/root 824 2024-10-25 14:34 ./usr/share/man/man1/STAR.1.gz lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [615 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [1394 B] Get:5 copy:/<>/apt_archive ./ Packages [1473 B] Fetched 3482 B in 0s (0 B/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Execute external solver... The following additional packages will be installed: appstream ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libappstream5 libapt-pkg-perl libassuan9 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libbrotli1 libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-inspector-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libcurl3t64-gnutls libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libfile-basedir-perl libfile-find-rule-perl libfile-listing-perl libfile-sharedir-perl libfont-ttf-perl libglib2.0-0t64 libgssapi-krb5-2 libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libio-string-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libpsl5t64 libreadline8t64 libregexp-wildcards-perl librole-tiny-perl librtmp1 libsasl2-2 libsasl2-modules-db libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libssh2-1t64 libstemmer0d libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libterm-readkey-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxmlb2 libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip readline-common shared-mime-info t1utils ucf unzip Suggested packages: apt-config-icons isoquery libxml-parser-perl low-memory-monitor krb5-doc krb5-user libdata-dump-perl libcrypt-ssleay-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libbusiness-isbn-perl libmime-base32-perl libregexp-ipv6-perl libauthen-ntlm-perl binutils-multiarch libtext-template-perl readline-doc zip Recommended packages: gnupg libcgi-fast-perl libglib2.0-data xdg-user-dirs libhtml-format-perl libio-compress-brotli-perl krb5-locales libldap-common liblist-someutils-xs-perl libfreezethaw-perl libmath-base85-perl libsocket6-perl libpackage-stash-xs-perl publicsuffix libsasl2-modules libxstring-perl libdata-dump-perl libhttp-daemon-perl libmailtools-perl libxml-sax-expat-perl The following NEW packages will be installed: appstream ca-certificates diffstat gpg gpgconf iso-codes libaliased-perl libappstream5 libapt-pkg-perl libassuan9 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libbrotli1 libcapture-tiny-perl libcgi-pm-perl libclass-data-inheritable-perl libclass-inspector-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libcurl3t64-gnutls libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdata-validate-ip-perl libdata-validate-uri-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libencode-locale-perl libexception-class-perl libfile-basedir-perl libfile-find-rule-perl libfile-listing-perl libfile-sharedir-perl libfont-ttf-perl libglib2.0-0t64 libgssapi-krb5-2 libhtml-form-perl libhtml-html5-entities-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tokeparser-simple-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libimport-into-perl libio-html-perl libio-interactive-perl libio-socket-ssl-perl libio-string-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 liblist-compare-perl liblist-someutils-perl liblist-utilsby-perl liblwp-mediatypes-perl liblwp-protocol-https-perl liblz1 liblzo2-2 libmarkdown2 libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnet-http-perl libnet-ipv6addr-perl libnet-netmask-perl libnet-ssleay-perl libnetaddr-ip-perl libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libpsl5t64 libreadline8t64 libregexp-wildcards-perl librole-tiny-perl librtmp1 libsasl2-2 libsasl2-modules-db libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libssh2-1t64 libstemmer0d libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libsyntax-keyword-try-perl libterm-readkey-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libwww-mechanize-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxmlb2 libxs-parse-keyword-perl libyaml-0-2 libyaml-libyaml-perl lintian lzop netbase openssl patchutils perl-openssl-defaults plzip readline-common sbuild-build-depends-lintian-dummy:arm64 shared-mime-info t1utils ucf unzip 0 upgraded, 160 newly installed, 0 to remove and 0 not upgraded. Need to get 18.8 MB of archives. After this operation, 75.2 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B] Get:2 http://localhost:3142/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get:3 http://localhost:3142/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get:4 http://localhost:3142/debian unstable/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get:5 http://localhost:3142/debian unstable/main amd64 ca-certificates all 20240203 [158 kB] Get:6 http://localhost:3142/debian unstable/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:7 http://localhost:3142/debian unstable/main amd64 libglib2.0-0t64 amd64 2.82.2-2 [1501 kB] Get:8 http://localhost:3142/debian unstable/main amd64 shared-mime-info amd64 2.4-5+b1 [759 kB] Get:9 http://localhost:3142/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b5 [307 kB] Get:10 http://localhost:3142/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:11 http://localhost:3142/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:12 http://localhost:3142/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get:13 http://localhost:3142/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:14 http://localhost:3142/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:15 http://localhost:3142/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get:16 http://localhost:3142/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get:17 http://localhost:3142/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get:18 http://localhost:3142/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get:19 http://localhost:3142/debian unstable/main amd64 libnghttp3-9 amd64 1.4.0-1+b1 [63.6 kB] Get:20 http://localhost:3142/debian unstable/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get:21 http://localhost:3142/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get:22 http://localhost:3142/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:23 http://localhost:3142/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get:24 http://localhost:3142/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:25 http://localhost:3142/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.11.0-1 [359 kB] Get:26 http://localhost:3142/debian unstable/main amd64 libstemmer0d amd64 2.2.0-4+b2 [119 kB] Get:27 http://localhost:3142/debian unstable/main amd64 libxmlb2 amd64 0.3.21-1 [63.0 kB] Get:28 http://localhost:3142/debian unstable/main amd64 libyaml-0-2 amd64 0.2.5-1+b2 [52.7 kB] Get:29 http://localhost:3142/debian unstable/main amd64 libappstream5 amd64 1.0.3-1+b1 [224 kB] Get:30 http://localhost:3142/debian unstable/main amd64 appstream amd64 1.0.3-1+b1 [469 kB] Get:31 http://localhost:3142/debian unstable/main amd64 diffstat amd64 1.66-1 [34.0 kB] Get:32 http://localhost:3142/debian unstable/main amd64 libassuan9 amd64 3.0.1-2 [60.6 kB] Get:33 http://localhost:3142/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:34 http://localhost:3142/debian unstable/main amd64 gpgconf amd64 2.2.45-2 [120 kB] Get:35 http://localhost:3142/debian unstable/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:36 http://localhost:3142/debian unstable/main amd64 gpg amd64 2.2.45-2 [531 kB] Get:37 http://localhost:3142/debian unstable/main amd64 iso-codes all 4.17.0-1 [3055 kB] Get:38 http://localhost:3142/debian unstable/main amd64 libaliased-perl all 0.34-3 [13.5 kB] Get:39 http://localhost:3142/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.40+b6 [67.8 kB] Get:40 http://localhost:3142/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get:41 http://localhost:3142/debian unstable/main amd64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get:42 http://localhost:3142/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.009-1+b1 [16.2 kB] Get:43 http://localhost:3142/debian unstable/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get:44 http://localhost:3142/debian unstable/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get:45 http://localhost:3142/debian unstable/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get:46 http://localhost:3142/debian unstable/main amd64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get:47 http://localhost:3142/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get:48 http://localhost:3142/debian unstable/main amd64 libvariable-magic-perl amd64 0.64-1+b1 [44.9 kB] Get:49 http://localhost:3142/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.28-1 [17.5 kB] Get:50 http://localhost:3142/debian unstable/main amd64 libberkeleydb-perl amd64 0.66-1 [121 kB] Get:51 http://localhost:3142/debian unstable/main amd64 libcapture-tiny-perl all 0.48-2 [24.6 kB] Get:52 http://localhost:3142/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get:53 http://localhost:3142/debian unstable/main amd64 liburi-perl all 5.30-1 [105 kB] Get:54 http://localhost:3142/debian unstable/main amd64 libhtml-parser-perl amd64 3.83-1+b1 [99.7 kB] Get:55 http://localhost:3142/debian unstable/main amd64 libcgi-pm-perl all 4.66-1 [217 kB] Get:56 http://localhost:3142/debian unstable/main amd64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get:57 http://localhost:3142/debian unstable/main amd64 libclass-inspector-perl all 1.36-3 [17.5 kB] Get:58 http://localhost:3142/debian unstable/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get:59 http://localhost:3142/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b4 [36.1 kB] Get:60 http://localhost:3142/debian unstable/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get:61 http://localhost:3142/debian unstable/main amd64 libconfig-tiny-perl all 2.30-1 [18.9 kB] Get:62 http://localhost:3142/debian unstable/main amd64 libparams-util-perl amd64 1.102-3+b1 [24.4 kB] Get:63 http://localhost:3142/debian unstable/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get:64 http://localhost:3142/debian unstable/main amd64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get:65 http://localhost:3142/debian unstable/main amd64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get:66 http://localhost:3142/debian unstable/main amd64 libconst-fast-perl all 0.014-2 [8792 B] Get:67 http://localhost:3142/debian unstable/main amd64 libcpanel-json-xs-perl amd64 4.38-1+b1 [129 kB] Get:68 http://localhost:3142/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get:69 http://localhost:3142/debian unstable/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:70 http://localhost:3142/debian unstable/main amd64 libiterator-perl all 0.03+ds1-2 [18.8 kB] Get:71 http://localhost:3142/debian unstable/main amd64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB] Get:72 http://localhost:3142/debian unstable/main amd64 libdata-dpath-perl all 0.60-1 [41.8 kB] Get:73 http://localhost:3142/debian unstable/main amd64 libdata-messagepack-perl amd64 1.02-1+b4 [32.8 kB] Get:74 http://localhost:3142/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-4 [31.5 kB] Get:75 http://localhost:3142/debian unstable/main amd64 libdata-validate-domain-perl all 0.15-1 [11.9 kB] Get:76 http://localhost:3142/debian unstable/main amd64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB] Get:77 http://localhost:3142/debian unstable/main amd64 libnet-netmask-perl all 2.0002-2 [28.6 kB] Get:78 http://localhost:3142/debian unstable/main amd64 libnetaddr-ip-perl amd64 4.079+dfsg-2+b4 [98.1 kB] Get:79 http://localhost:3142/debian unstable/main amd64 libdata-validate-ip-perl all 0.31-1 [20.6 kB] Get:80 http://localhost:3142/debian unstable/main amd64 libdata-validate-uri-perl all 0.07-3 [11.0 kB] Get:81 http://localhost:3142/debian unstable/main amd64 libdevel-size-perl amd64 0.84-1+b1 [24.2 kB] Get:82 http://localhost:3142/debian unstable/main amd64 libemail-address-xs-perl amd64 1.05-1+b4 [29.4 kB] Get:83 http://localhost:3142/debian unstable/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:84 http://localhost:3142/debian unstable/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:85 http://localhost:3142/debian unstable/main amd64 libfile-basedir-perl all 0.09-2 [15.1 kB] Get:86 http://localhost:3142/debian unstable/main amd64 libnumber-compare-perl all 0.03-3 [6332 B] Get:87 http://localhost:3142/debian unstable/main amd64 libtext-glob-perl all 0.11-3 [7676 B] Get:88 http://localhost:3142/debian unstable/main amd64 libfile-find-rule-perl all 0.34-3 [26.6 kB] Get:89 http://localhost:3142/debian unstable/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:90 http://localhost:3142/debian unstable/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get:91 http://localhost:3142/debian unstable/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get:92 http://localhost:3142/debian unstable/main amd64 libfile-sharedir-perl all 1.118-3 [16.0 kB] Get:93 http://localhost:3142/debian unstable/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:94 http://localhost:3142/debian unstable/main amd64 libfont-ttf-perl all 1.06-2 [318 kB] Get:95 http://localhost:3142/debian unstable/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get:96 http://localhost:3142/debian unstable/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get:97 http://localhost:3142/debian unstable/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get:98 http://localhost:3142/debian unstable/main amd64 libhtml-form-perl all 6.12-1 [32.3 kB] Get:99 http://localhost:3142/debian unstable/main amd64 libhtml-html5-entities-perl all 0.004-3 [21.0 kB] Get:100 http://localhost:3142/debian unstable/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get:101 http://localhost:3142/debian unstable/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get:102 http://localhost:3142/debian unstable/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get:103 http://localhost:3142/debian unstable/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get:104 http://localhost:3142/debian unstable/main amd64 libnet-ssleay-perl amd64 1.94-2 [339 kB] Get:105 http://localhost:3142/debian unstable/main amd64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get:106 http://localhost:3142/debian unstable/main amd64 libnet-http-perl all 6.23-1 [23.9 kB] Get:107 http://localhost:3142/debian unstable/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get:108 http://localhost:3142/debian unstable/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:109 http://localhost:3142/debian unstable/main amd64 libwww-perl all 6.77-1 [183 kB] Get:110 http://localhost:3142/debian unstable/main amd64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB] Get:111 http://localhost:3142/debian unstable/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get:112 http://localhost:3142/debian unstable/main amd64 libio-interactive-perl all 1.025-1 [11.4 kB] Get:113 http://localhost:3142/debian unstable/main amd64 libipc-run3-perl all 0.049-1 [31.5 kB] Get:114 http://localhost:3142/debian unstable/main amd64 libjson-maybexs-perl all 1.004008-1 [12.9 kB] Get:115 http://localhost:3142/debian unstable/main amd64 liblist-compare-perl all 0.55-2 [65.7 kB] Get:116 http://localhost:3142/debian unstable/main amd64 liblist-someutils-perl all 0.59-1 [37.1 kB] Get:117 http://localhost:3142/debian unstable/main amd64 liblist-utilsby-perl all 0.12-2 [15.5 kB] Get:118 http://localhost:3142/debian unstable/main amd64 liblz1 amd64 1.15~pre2-1 [39.2 kB] Get:119 http://localhost:3142/debian unstable/main amd64 liblzo2-2 amd64 2.10-3+b1 [55.1 kB] Get:120 http://localhost:3142/debian unstable/main amd64 libmarkdown2 amd64 2.2.7-2+b1 [35.6 kB] Get:121 http://localhost:3142/debian unstable/main amd64 libmldbm-perl all 2.05-4 [16.8 kB] Get:122 http://localhost:3142/debian unstable/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:123 http://localhost:3142/debian unstable/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get:124 http://localhost:3142/debian unstable/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get:125 http://localhost:3142/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:126 http://localhost:3142/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-2 [7156 B] Get:127 http://localhost:3142/debian unstable/main amd64 libmouse-perl amd64 2.5.11-1+b1 [144 kB] Get:128 http://localhost:3142/debian unstable/main amd64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get:129 http://localhost:3142/debian unstable/main amd64 libsub-identify-perl amd64 0.14-3+b3 [11.3 kB] Get:130 http://localhost:3142/debian unstable/main amd64 libsub-name-perl amd64 0.27-1+b3 [12.5 kB] Get:131 http://localhost:3142/debian unstable/main amd64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get:132 http://localhost:3142/debian unstable/main amd64 libpath-tiny-perl all 0.146-1 [56.2 kB] Get:133 http://localhost:3142/debian unstable/main amd64 libperlio-gzip-perl amd64 0.20-1+b4 [17.5 kB] Get:134 http://localhost:3142/debian unstable/main amd64 libperlio-utf8-strict-perl amd64 0.010-1+b3 [11.4 kB] Get:135 http://localhost:3142/debian unstable/main amd64 libproc-processtable-perl amd64 0.636-1+b3 [42.3 kB] Get:136 http://localhost:3142/debian unstable/main amd64 libregexp-wildcards-perl all 1.05-3 [14.1 kB] Get:137 http://localhost:3142/debian unstable/main amd64 libsereal-decoder-perl amd64 5.004+ds-1+b3 [100 kB] Get:138 http://localhost:3142/debian unstable/main amd64 libsereal-encoder-perl amd64 5.004+ds-1+b3 [104 kB] Get:139 http://localhost:3142/debian unstable/main amd64 libsort-versions-perl all 1.62-3 [8928 B] Get:140 http://localhost:3142/debian unstable/main amd64 libxs-parse-keyword-perl amd64 0.46-1+b1 [64.9 kB] Get:141 http://localhost:3142/debian unstable/main amd64 libsyntax-keyword-try-perl amd64 0.30-1+b1 [27.4 kB] Get:142 http://localhost:3142/debian unstable/main amd64 libterm-readkey-perl amd64 2.38-2+b4 [24.6 kB] Get:143 http://localhost:3142/debian unstable/main amd64 libtext-levenshteinxs-perl amd64 0.03-5+b4 [8720 B] Get:144 http://localhost:3142/debian unstable/main amd64 libtext-markdown-discount-perl amd64 0.16-1+b3 [13.0 kB] Get:145 http://localhost:3142/debian unstable/main amd64 libtext-xslate-perl amd64 3.5.9-2+b1 [174 kB] Get:146 http://localhost:3142/debian unstable/main amd64 libtime-duration-perl all 1.21-2 [13.1 kB] Get:147 http://localhost:3142/debian unstable/main amd64 libtime-moment-perl amd64 0.44-2+b4 [73.2 kB] Get:148 http://localhost:3142/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-2+b3 [20.4 kB] Get:149 http://localhost:3142/debian unstable/main amd64 libwww-mechanize-perl all 2.19-1 [114 kB] Get:150 http://localhost:3142/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:151 http://localhost:3142/debian unstable/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:152 http://localhost:3142/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:153 http://localhost:3142/debian unstable/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-5+b1 [314 kB] Get:154 http://localhost:3142/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.902.0+ds-2+b1 [35.5 kB] Get:155 http://localhost:3142/debian unstable/main amd64 plzip amd64 1.11-2 [63.6 kB] Get:156 http://localhost:3142/debian unstable/main amd64 lzop amd64 1.04-2 [84.2 kB] Get:157 http://localhost:3142/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get:158 http://localhost:3142/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:159 http://localhost:3142/debian unstable/main amd64 unzip amd64 6.0-28 [166 kB] Get:160 http://localhost:3142/debian unstable/main amd64 lintian all 2.120.0 [1058 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 18.8 MB in 0s (67.9 MB/s) Selecting previously unselected package netbase. 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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package gpgconf. Preparing to unpack .../032-gpgconf_2.2.45-2_amd64.deb ... Unpacking gpgconf (2.2.45-2) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../033-libsqlite3-0_3.46.1-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.46.1-1) ... Selecting previously unselected package gpg. 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Selecting previously unselected package sbuild-build-depends-lintian-dummy:arm64. Preparing to unpack .../159-sbuild-build-depends-lintian-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-lintian-dummy:arm64 (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.40+b6) ... Setting up liblz1:amd64 (1.15~pre2-1) ... Setting up libberkeleydb-perl:amd64 (0.66-1) ... Setting up plzip (1.11-2) ... update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip (lzip) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-compressor (lzip-compressor) in auto mode update-alternatives: using /usr/bin/lzip.plzip to provide /usr/bin/lzip-decompressor (lzip-decompressor) in auto mode Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libunicode-utf8-perl (0.62-2+b3) ... Setting up libmouse-perl:amd64 (2.5.11-1+b1) ... Setting up libdata-messagepack-perl (1.02-1+b4) ... Setting up libclass-inspector-perl (1.36-3) ... Setting up libdynaloader-functions-perl (0.004-1) ... Setting up libtext-glob-perl (0.11-3) ... Setting up libclass-method-modifiers-perl (2.15-1) ... Setting up liblist-compare-perl (0.55-2) ... Setting up libclone-perl:amd64 (0.47-1+b1) ... Setting up libyaml-0-2:amd64 (0.2.5-1+b2) ... Setting up libsub-identify-perl (0.14-3+b3) ... Setting up libcpanel-json-xs-perl:amd64 (4.38-1+b1) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libdevel-size-perl (0.84-1+b1) ... Setting up unzip (6.0-28) ... Setting up libbrotli1:amd64 (1.1.0-2+b5) ... Setting up libsqlite3-0:amd64 (3.46.1-1) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libyaml-libyaml-perl (0.902.0+ds-2+b1) ... Setting up libio-interactive-perl (1.025-1) ... Setting up libtry-tiny-perl (0.32-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up perl-openssl-defaults:amd64 (7+b2) ... Setting up libmldbm-perl (2.05-4) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up liblzo2-2:amd64 (2.10-3+b1) ... Setting up libtime-moment-perl (0.44-2+b4) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libconfig-tiny-perl (2.30-1) ... Setting up libsereal-encoder-perl (5.004+ds-1+b3) ... Setting up liblist-utilsby-perl (0.12-2) ... Setting up libnet-netmask-perl (2.0002-2) ... Setting up libsub-install-perl (0.929-1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libnumber-compare-perl (0.03-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up patchutils (0.4.2-1) ... Setting up libjson-maybexs-perl (1.004008-1) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up libio-string-perl (1.08-4) ... Setting up libnetaddr-ip-perl (4.079+dfsg-2+b4) ... Setting up libglib2.0-0t64:amd64 (2.82.2-2) ... No schema files found: doing nothing. Setting up libclass-data-inheritable-perl (0.10-1) ... Setting up libfile-find-rule-perl (0.34-3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libipc-system-simple-perl (1.30-2) ... Setting up libnet-domain-tld-perl (1.75-4) ... Setting up libperlio-utf8-strict-perl (0.010-1+b3) ... Setting up t1utils (1.41-4) ... Setting up shared-mime-info (2.4-5+b1) ... Setting up diffstat (1.66-1) ... Setting up libvariable-magic-perl (0.64-1+b1) ... Setting up libio-html-perl (1.004-3) ... Setting up libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Setting up ucf (3.0043+nmu1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libparams-util-perl (1.102-3+b1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libtime-duration-perl (1.21-2) ... Setting up libtext-xslate-perl:amd64 (3.5.9-2+b1) ... Setting up libnghttp3-9:amd64 (1.4.0-1+b1) ... Setting up libsub-exporter-progressive-perl (0.001013-3) ... Setting up libcapture-tiny-perl (0.48-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libsub-name-perl:amd64 (0.27-1+b3) ... Setting up libdata-validate-domain-perl (0.15-1) ... Setting up libproc-processtable-perl:amd64 (0.636-1+b3) ... Setting up libpath-tiny-perl (0.146-1) ... Setting up lzop (1.04-2) ... Setting up libassuan9:amd64 (3.0.1-2) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libipc-run3-perl (0.049-1) ... Setting up libregexp-wildcards-perl (1.05-3) ... Setting up libfile-sharedir-perl (1.118-3) ... Setting up libaliased-perl (0.34-3) ... Setting up netbase (6.4) ... Setting up libngtcp2-16:amd64 (1.6.0-1) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libdevel-stacktrace-perl (2.0500-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b4) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libstemmer0d:amd64 (2.2.0-4+b2) ... Setting up libsort-versions-perl (1.62-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libterm-readkey-perl (2.38-2+b4) ... Setting up libfont-ttf-perl (1.06-2) ... Setting up openssl (3.3.2-2) ... Setting up libtext-levenshteinxs-perl (0.03-5+b4) ... Setting up libperlio-gzip-perl (0.20-1+b4) ... Setting up readline-common (8.2-5) ... Setting up libhtml-html5-entities-perl (0.004-3) ... Setting up libsereal-decoder-perl (5.004+ds-1+b3) ... Setting up libmarkdown2:amd64 (2.2.7-2+b1) ... Setting up liburi-perl (5.30-1) ... Setting up iso-codes (4.17.0-1) ... Setting up libnet-ipv6addr-perl (1.02-1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Setting up libdata-validate-ip-perl (0.31-1) ... Setting up libemail-address-xs-perl (1.05-1+b4) ... Setting up libnet-ssleay-perl:amd64 (1.94-2) ... Setting up libhttp-date-perl (6.06-1) ... Setting up libfile-basedir-perl (0.09-2) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libxmlb2:amd64 (0.3.21-1) ... Setting up libnet-http-perl (6.23-1) ... Setting up libtext-markdown-discount-perl (0.16-1+b3) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl:amd64 (0.009-1+b1) ... Setting up libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libdata-validate-uri-perl (0.07-3) ... Setting up libxs-parse-keyword-perl (0.46-1+b1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libwww-robotrules-perl (6.02-1) ... Setting up libsyntax-keyword-try-perl (0.30-1+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b1) ... Setting up gpgconf (2.2.45-2) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.2.45-2) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libhtml-form-perl (6.12-1) ... Setting up libiterator-perl (0.03+ds1-2) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up libiterator-util-perl (0.02+ds1-2) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up libcgi-pm-perl (4.66-1) ... Setting up libcurl3t64-gnutls:amd64 (8.11.0-1) ... Setting up libappstream5:amd64 (1.0.3-1+b1) ... Setting up appstream (1.0.3-1+b1) ... ✔ Metadata cache was updated successfully. Setting up libmodule-runtime-perl (0.016-2) ... Setting up libconst-fast-perl (0.014-2) ... Setting up libdata-dpath-perl (0.60-1) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up liblist-someutils-perl (0.59-1) ... Setting up libmoox-aliases-perl (0.001006-2) ... Setting up libb-hooks-endofscope-perl (0.28-1) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.77-1) ... Setting up libhtml-tokeparser-simple-perl (3.16-4) ... Setting up libwww-mechanize-perl (2.19-1) ... Setting up lintian (2.120.0) ... Setting up sbuild-build-depends-lintian-dummy:arm64 (0.invalid.0) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Running lintian... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 325908 Build-Time: 330 Distribution: unstable Foreign Architectures: arm64 Host Architecture: arm64 Install-Time: 12 Job: rna-star_2.7.11b+dfsg-2 Lintian: pass Machine Architecture: amd64 Package: rna-star Package-Time: 361 Source-Version: 2.7.11b+dfsg-2 Space: 325908 Status: successful Version: 2.7.11b+dfsg-2 -------------------------------------------------------------------------------- Finished at 2024-11-13T07:04:04Z Build needed 00:06:01, 325908k disk space