sbuild (Debian sbuild) 0.85.0 (04 January 2023) on mjolnir.einval.org +==============================================================================+ | bedops 2.4.42+dfsg-1 (i386) Fri, 22 Aug 2025 18:19:32 +0000 | +==============================================================================+ Package: bedops Version: 2.4.42+dfsg-1 Source Version: 2.4.42+dfsg-1 Distribution: unstable Machine Architecture: arm64 Host Architecture: i386 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Unpacking /home/helmut/.cache/sbuild/unstable-arm64-sbuild.tar.zst to /tmp/tmp.sbuild.Bxc2oM2SCi... I: NOTICE: Log filtering will replace 'sbuild-unshare-dummy-location' with '<>' I: NOTICE: Log filtering will replace 'build/bedops-9QKePq/resolver-hejyks' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://mirror.einval.org/debian unstable InRelease [216 kB] Get:2 http://mirror.einval.org/debian unstable/main Sources [11.1 MB] Get:3 http://mirror.einval.org/debian unstable/main i386 Packages [9910 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 Packages [10.1 MB] Fetched 31.3 MB in 7s (4336 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: binutils-gold binutils-gold-aarch64-linux-gnu Use 'apt autoremove' to remove them. The following packages will be upgraded: binutils binutils-aarch64-linux-gnu binutils-common libbinutils libctf-nobfd0 libctf0 libgprofng0 libsframe2 libsystemd0 libudev1 10 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 5897 kB of archives. After this operation, 1024 B disk space will be freed. Get:1 http://mirror.einval.org/debian unstable/main arm64 libsystemd0 arm64 258~rc3-1 [433 kB] Get:2 http://mirror.einval.org/debian unstable/main arm64 libudev1 arm64 258~rc3-1 [148 kB] Get:3 http://mirror.einval.org/debian unstable/main arm64 libgprofng0 arm64 2.45-4 [669 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 libctf0 arm64 2.45-4 [85.0 kB] Get:5 http://mirror.einval.org/debian unstable/main arm64 libctf-nobfd0 arm64 2.45-4 [153 kB] Get:6 http://mirror.einval.org/debian unstable/main arm64 binutils-aarch64-linux-gnu arm64 2.45-4 [843 kB] Get:7 http://mirror.einval.org/debian unstable/main arm64 binutils arm64 2.45-4 [262 kB] Get:8 http://mirror.einval.org/debian unstable/main arm64 libbinutils arm64 2.45-4 [669 kB] Get:9 http://mirror.einval.org/debian unstable/main arm64 binutils-common arm64 2.45-4 [2556 kB] Get:10 http://mirror.einval.org/debian unstable/main arm64 libsframe2 arm64 2.45-4 [78.9 kB] Fetched 5897 kB in 0s (58.0 MB/s) (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 ... 12076 files and directories currently installed.) Preparing to unpack .../libsystemd0_258~rc3-1_arm64.deb ... Unpacking libsystemd0:arm64 (258~rc3-1) over (258~rc2-2) ... Setting up libsystemd0:arm64 (258~rc3-1) ... (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 ... 12076 files and directories currently installed.) Preparing to unpack .../libudev1_258~rc3-1_arm64.deb ... Unpacking libudev1:arm64 (258~rc3-1) over (258~rc2-2) ... Setting up libudev1:arm64 (258~rc3-1) ... (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 ... 12076 files and directories currently installed.) Preparing to unpack .../0-libgprofng0_2.45-4_arm64.deb ... Unpacking libgprofng0:arm64 (2.45-4) over (2.45-3) ... Preparing to unpack .../1-libctf0_2.45-4_arm64.deb ... Unpacking libctf0:arm64 (2.45-4) over (2.45-3) ... Preparing to unpack .../2-libctf-nobfd0_2.45-4_arm64.deb ... Unpacking libctf-nobfd0:arm64 (2.45-4) over (2.45-3) ... Preparing to unpack .../3-binutils-aarch64-linux-gnu_2.45-4_arm64.deb ... Unpacking binutils-aarch64-linux-gnu (2.45-4) over (2.45-3) ... Preparing to unpack .../4-binutils_2.45-4_arm64.deb ... Unpacking binutils (2.45-4) over (2.45-3) ... Preparing to unpack .../5-libbinutils_2.45-4_arm64.deb ... Unpacking libbinutils:arm64 (2.45-4) over (2.45-3) ... Preparing to unpack .../6-binutils-common_2.45-4_arm64.deb ... Unpacking binutils-common:arm64 (2.45-4) over (2.45-3) ... Preparing to unpack .../7-libsframe2_2.45-4_arm64.deb ... Unpacking libsframe2:arm64 (2.45-4) over (2.45-3) ... Setting up libsframe2:arm64 (2.45-4) ... Setting up binutils-common:arm64 (2.45-4) ... Setting up libctf-nobfd0:arm64 (2.45-4) ... Setting up libbinutils:arm64 (2.45-4) ... Setting up libctf0:arm64 (2.45-4) ... Setting up binutils-aarch64-linux-gnu (2.45-4) ... Setting up libgprofng0:arm64 (2.45-4) ... Setting up binutils (2.45-4) ... Processing triggers for libc-bin (2.41-12) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'bedops' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/bedops.git Please use: git clone https://salsa.debian.org/med-team/bedops.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 13.5 MB of source archives. Get:1 http://mirror.einval.org/debian unstable/main bedops 2.4.42+dfsg-1 (dsc) [2232 B] Get:2 http://mirror.einval.org/debian unstable/main bedops 2.4.42+dfsg-1 (tar) [13.5 MB] Get:3 http://mirror.einval.org/debian unstable/main bedops 2.4.42+dfsg-1 (diff) [10.8 kB] Fetched 13.5 MB in 0s (70.0 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/bedops-9QKePq/bedops-2.4.42+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/bedops-9QKePq' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), help2man, libbz2-dev, libjansson-dev, zlib1g-dev, tcsh, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 Filtered Build-Depends: debhelper-compat (= 13), help2man, libbz2-dev, libjansson-dev, zlib1g-dev, tcsh, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 dpkg-deb: warning: root directory /<>/sbuild-build-depends-main-dummy has unusual owner or group 998:999 dpkg-deb: hint: you might need to pass --root-owner-group, see for further details dpkg-deb: warning: ignoring 1 warning about the control file(s) 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 [767 B] Get:5 copy:/<>/apt_archive ./ Packages [809 B] Fetched 2185 B in 0s (87.0 kB/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 packages were automatically installed and are no longer required: binutils-gold binutils-gold-aarch64-linux-gnu Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-i686-linux-gnu bsdextrautils cpp-14-i686-linux-gnu cpp-i686-linux-gnu crossbuild-essential-i386 debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-i686-linux-gnu g++-i686-linux-gnu gcc-14-base:i386 gcc-14-cross-base gcc-14-i686-linux-gnu gcc-14-i686-linux-gnu-base gcc-15-base:i386 gcc-15-cross-base gcc-i686-linux-gnu gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libbz2-1.0:i386 libbz2-dev:i386 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcrypt-dev:i386 libcrypt1:i386 libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libgcc-14-dev:i386 libgcc-14-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgomp1:i386 libgomp1-i386-cross libitm1:i386 libitm1-i386-cross libjansson-dev:i386 libjansson4:i386 liblocale-gettext-perl libmagic-mgc libmagic1t64 libpipeline1 libquadmath0:i386 libquadmath0-i386-cross libstdc++-14-dev:i386 libstdc++-14-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunistring5 libxml2-16 linux-libc-dev-i386-cross m4 man-db po-debconf sensible-utils tcsh zlib1g:i386 zlib1g-dev:i386 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-14-locales cpp-14-doc cpp-doc dh-make gcc-14-doc manpages-dev flex bison gdb-i686-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff glibc-doc:i386 libc-l10n:i386 locales:i386 libnss-nis:i386 libnss-nisplus:i386 manpages-dev:i386 libstdc++-14-doc:i386 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx bzip2-doc:i386 libidn2-0:i386 libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-i686-linux-gnu bsdextrautils cpp-14-i686-linux-gnu cpp-i686-linux-gnu crossbuild-essential-i386 debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-i686-linux-gnu g++-i686-linux-gnu gcc-14-base:i386 gcc-14-cross-base gcc-14-i686-linux-gnu gcc-14-i686-linux-gnu-base gcc-15-base:i386 gcc-15-cross-base gcc-i686-linux-gnu gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libbz2-1.0:i386 libbz2-dev:i386 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcrypt-dev:i386 libcrypt1:i386 libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libgcc-14-dev:i386 libgcc-14-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgomp1:i386 libgomp1-i386-cross libitm1:i386 libitm1-i386-cross libjansson-dev:i386 libjansson4:i386 liblocale-gettext-perl libmagic-mgc libmagic1t64 libpipeline1 libquadmath0:i386 libquadmath0-i386-cross libstdc++-14-dev:i386 libstdc++-14-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunistring5 libxml2-16 linux-libc-dev-i386-cross m4 man-db po-debconf sbuild-build-depends-main-dummy:i386 sensible-utils tcsh zlib1g:i386 zlib1g-dev:i386 0 upgraded, 81 newly installed, 0 to remove and 0 not upgraded. Need to get 87.3 MB of archives. After this operation, 351 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [944 B] Get:2 http://mirror.einval.org/debian unstable/main arm64 liblocale-gettext-perl arm64 1.07-7+b1 [15.2 kB] Get:3 http://mirror.einval.org/debian unstable/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get:5 http://mirror.einval.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get:6 http://mirror.einval.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get:7 http://mirror.einval.org/debian unstable/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get:8 http://mirror.einval.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get:9 http://mirror.einval.org/debian unstable/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get:10 http://mirror.einval.org/debian unstable/main arm64 bsdextrautils arm64 2.41.1-1 [93.8 kB] Get:11 http://mirror.einval.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get:12 http://mirror.einval.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get:13 http://mirror.einval.org/debian unstable/main arm64 m4 arm64 1.4.19-8 [285 kB] Get:14 http://mirror.einval.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get:15 http://mirror.einval.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get:16 http://mirror.einval.org/debian unstable/main arm64 automake all 1:1.17-4 [862 kB] Get:17 http://mirror.einval.org/debian unstable/main arm64 autopoint all 0.23.1-2 [770 kB] Get:18 http://mirror.einval.org/debian unstable/main arm64 gcc-14-i686-linux-gnu-base arm64 14.3.0-5cross3 [51.7 kB] Get:19 http://mirror.einval.org/debian unstable/main arm64 cpp-14-i686-linux-gnu arm64 14.3.0-5cross3 [10.4 MB] Get:20 http://mirror.einval.org/debian unstable/main arm64 cpp-i686-linux-gnu arm64 4:14.2.0-1 [4840 B] Get:21 http://mirror.einval.org/debian unstable/main arm64 binutils-i686-linux-gnu arm64 2.45-4 [1508 kB] Get:22 http://mirror.einval.org/debian unstable/main arm64 gcc-14-cross-base all 14.3.0-5cross3 [47.0 kB] Get:23 http://mirror.einval.org/debian unstable/main arm64 gcc-15-cross-base all 15.2.0-1cross1 [47.6 kB] Get:24 http://mirror.einval.org/debian unstable/main arm64 libc6-i386-cross all 2.41-11cross1 [1424 kB] Get:25 http://mirror.einval.org/debian unstable/main arm64 libgcc-s1-i386-cross all 15.2.0-1cross1 [87.0 kB] Get:26 http://mirror.einval.org/debian unstable/main arm64 libgomp1-i386-cross all 15.2.0-1cross1 [139 kB] Get:27 http://mirror.einval.org/debian unstable/main arm64 libitm1-i386-cross all 15.2.0-1cross1 [27.5 kB] Get:28 http://mirror.einval.org/debian unstable/main arm64 libatomic1-i386-cross all 15.2.0-1cross1 [7492 B] Get:29 http://mirror.einval.org/debian unstable/main arm64 libasan8-i386-cross all 15.2.0-1cross1 [2642 kB] Get:30 http://mirror.einval.org/debian unstable/main arm64 libstdc++6-i386-cross all 15.2.0-1cross1 [733 kB] Get:31 http://mirror.einval.org/debian unstable/main arm64 libubsan1-i386-cross all 15.2.0-1cross1 [1080 kB] Get:32 http://mirror.einval.org/debian unstable/main arm64 libquadmath0-i386-cross all 15.2.0-1cross1 [229 kB] Get:33 http://mirror.einval.org/debian unstable/main arm64 libgcc-14-dev-i386-cross all 14.3.0-5cross3 [2581 kB] Get:34 http://mirror.einval.org/debian unstable/main arm64 gcc-14-i686-linux-gnu arm64 14.3.0-5cross3 [20.0 MB] Get:35 http://mirror.einval.org/debian unstable/main arm64 gcc-i686-linux-gnu arm64 4:14.2.0-1 [1444 B] Get:36 http://mirror.einval.org/debian unstable/main arm64 linux-libc-dev-i386-cross all 6.12.38-1cross1 [2470 kB] Get:37 http://mirror.einval.org/debian unstable/main arm64 libc6-dev-i386-cross all 2.41-11cross1 [1806 kB] Get:38 http://mirror.einval.org/debian unstable/main arm64 libstdc++-14-dev-i386-cross all 14.3.0-5cross3 [2732 kB] Get:39 http://mirror.einval.org/debian unstable/main arm64 g++-14-i686-linux-gnu arm64 14.3.0-5cross3 [11.2 MB] Get:40 http://mirror.einval.org/debian unstable/main arm64 g++-i686-linux-gnu arm64 4:14.2.0-1 [1200 B] Get:41 http://mirror.einval.org/debian unstable/main arm64 crossbuild-essential-i386 all 12.12 [3544 B] Get:42 http://mirror.einval.org/debian unstable/main arm64 libdebhelper-perl all 13.25 [91.6 kB] Get:43 http://mirror.einval.org/debian unstable/main arm64 libtool all 2.5.4-4 [539 kB] Get:44 http://mirror.einval.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get:45 http://mirror.einval.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get:46 http://mirror.einval.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get:47 http://mirror.einval.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get:48 http://mirror.einval.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get:49 http://mirror.einval.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get:50 http://mirror.einval.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get:51 http://mirror.einval.org/debian unstable/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.1 [583 kB] Get:52 http://mirror.einval.org/debian unstable/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get:53 http://mirror.einval.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:54 http://mirror.einval.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:55 http://mirror.einval.org/debian unstable/main arm64 debhelper all 13.25 [937 kB] Get:56 http://mirror.einval.org/debian unstable/main arm64 libfakeroot arm64 1.37.1.2-1 [29.7 kB] Get:57 http://mirror.einval.org/debian unstable/main arm64 fakeroot arm64 1.37.1.2-1 [75.4 kB] Get:58 http://mirror.einval.org/debian unstable/main i386 gcc-14-base i386 14.3.0-5 [51.5 kB] Get:59 http://mirror.einval.org/debian unstable/main i386 gcc-15-base i386 15.2.0-1 [52.0 kB] Get:60 http://mirror.einval.org/debian unstable/main arm64 help2man arm64 1.49.3+b1 [198 kB] Get:61 http://mirror.einval.org/debian unstable/main i386 libgcc-s1 i386 15.2.0-1 [87.0 kB] Get:62 http://mirror.einval.org/debian unstable/main i386 libc6 i386 2.41-12 [2720 kB] Get:63 http://mirror.einval.org/debian unstable/main i386 libasan8 i386 15.2.0-1 [2651 kB] Get:64 http://mirror.einval.org/debian unstable/main i386 libatomic1 i386 15.2.0-1 [7744 B] Get:65 http://mirror.einval.org/debian unstable/main i386 libbz2-1.0 i386 1.0.8-6 [38.1 kB] Get:66 http://mirror.einval.org/debian unstable/main i386 libcrypt1 i386 1:4.4.38-1 [95.7 kB] Get:67 http://mirror.einval.org/debian unstable/main i386 libcrypt-dev i386 1:4.4.38-1 [126 kB] Get:68 http://mirror.einval.org/debian unstable/main i386 libc6-dev i386 2.41-12 [1809 kB] Get:69 http://mirror.einval.org/debian unstable/main i386 libbz2-dev i386 1.0.8-6 [32.1 kB] Get:70 http://mirror.einval.org/debian unstable/main i386 libgomp1 i386 15.2.0-1 [142 kB] Get:71 http://mirror.einval.org/debian unstable/main i386 libitm1 i386 15.2.0-1 [28.0 kB] Get:72 http://mirror.einval.org/debian unstable/main i386 libstdc++6 i386 15.2.0-1 [781 kB] Get:73 http://mirror.einval.org/debian unstable/main i386 libubsan1 i386 15.2.0-1 [1081 kB] Get:74 http://mirror.einval.org/debian unstable/main i386 libquadmath0 i386 15.2.0-1 [229 kB] Get:75 http://mirror.einval.org/debian unstable/main i386 libgcc-14-dev i386 14.3.0-5 [2580 kB] Get:76 http://mirror.einval.org/debian unstable/main i386 libjansson4 i386 2.14-2+b3 [41.6 kB] Get:77 http://mirror.einval.org/debian unstable/main i386 libjansson-dev i386 2.14-2+b3 [45.9 kB] Get:78 http://mirror.einval.org/debian unstable/main i386 libstdc++-14-dev i386 14.3.0-5 [2727 kB] Get:79 http://mirror.einval.org/debian unstable/main arm64 tcsh arm64 6.24.13-2+b1 [439 kB] Get:80 http://mirror.einval.org/debian unstable/main i386 zlib1g i386 1:1.3.dfsg+really1.3.1-1+b1 [84.7 kB] Get:81 http://mirror.einval.org/debian unstable/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Preconfiguring packages ... Fetched 87.3 MB in 1s (93.7 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 12076 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-7+b1_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-7+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../03-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../06-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.41.1-1_arm64.deb ... Unpacking bsdextrautils (2.41.1-1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../09-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-8_arm64.deb ... Unpacking m4 (1.4.19-8) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.17-4_all.deb ... Unpacking automake (1:1.17-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package gcc-14-i686-linux-gnu-base:arm64. Preparing to unpack .../16-gcc-14-i686-linux-gnu-base_14.3.0-5cross3_arm64.deb ... Unpacking gcc-14-i686-linux-gnu-base:arm64 (14.3.0-5cross3) ... Selecting previously unselected package cpp-14-i686-linux-gnu. Preparing to unpack .../17-cpp-14-i686-linux-gnu_14.3.0-5cross3_arm64.deb ... Unpacking cpp-14-i686-linux-gnu (14.3.0-5cross3) ... Selecting previously unselected package cpp-i686-linux-gnu. Preparing to unpack .../18-cpp-i686-linux-gnu_4%3a14.2.0-1_arm64.deb ... Unpacking cpp-i686-linux-gnu (4:14.2.0-1) ... Selecting previously unselected package binutils-i686-linux-gnu. Preparing to unpack .../19-binutils-i686-linux-gnu_2.45-4_arm64.deb ... Unpacking binutils-i686-linux-gnu (2.45-4) ... Selecting previously unselected package gcc-14-cross-base. Preparing to unpack .../20-gcc-14-cross-base_14.3.0-5cross3_all.deb ... Unpacking gcc-14-cross-base (14.3.0-5cross3) ... Selecting previously unselected package gcc-15-cross-base. Preparing to unpack .../21-gcc-15-cross-base_15.2.0-1cross1_all.deb ... Unpacking gcc-15-cross-base (15.2.0-1cross1) ... Selecting previously unselected package libc6-i386-cross. Preparing to unpack .../22-libc6-i386-cross_2.41-11cross1_all.deb ... Unpacking libc6-i386-cross (2.41-11cross1) ... Selecting previously unselected package libgcc-s1-i386-cross. Preparing to unpack .../23-libgcc-s1-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libgcc-s1-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libgomp1-i386-cross. Preparing to unpack .../24-libgomp1-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libgomp1-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libitm1-i386-cross. Preparing to unpack .../25-libitm1-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libitm1-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libatomic1-i386-cross. Preparing to unpack .../26-libatomic1-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libatomic1-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libasan8-i386-cross. Preparing to unpack .../27-libasan8-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libasan8-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libstdc++6-i386-cross. Preparing to unpack .../28-libstdc++6-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libstdc++6-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libubsan1-i386-cross. Preparing to unpack .../29-libubsan1-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libubsan1-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libquadmath0-i386-cross. Preparing to unpack .../30-libquadmath0-i386-cross_15.2.0-1cross1_all.deb ... Unpacking libquadmath0-i386-cross (15.2.0-1cross1) ... Selecting previously unselected package libgcc-14-dev-i386-cross. Preparing to unpack .../31-libgcc-14-dev-i386-cross_14.3.0-5cross3_all.deb ... Unpacking libgcc-14-dev-i386-cross (14.3.0-5cross3) ... Selecting previously unselected package gcc-14-i686-linux-gnu. Preparing to unpack .../32-gcc-14-i686-linux-gnu_14.3.0-5cross3_arm64.deb ... Unpacking gcc-14-i686-linux-gnu (14.3.0-5cross3) ... Selecting previously unselected package gcc-i686-linux-gnu. Preparing to unpack .../33-gcc-i686-linux-gnu_4%3a14.2.0-1_arm64.deb ... Unpacking gcc-i686-linux-gnu (4:14.2.0-1) ... Selecting previously unselected package linux-libc-dev-i386-cross. Preparing to unpack .../34-linux-libc-dev-i386-cross_6.12.38-1cross1_all.deb ... Unpacking linux-libc-dev-i386-cross (6.12.38-1cross1) ... Selecting previously unselected package libc6-dev-i386-cross. Preparing to unpack .../35-libc6-dev-i386-cross_2.41-11cross1_all.deb ... Unpacking libc6-dev-i386-cross (2.41-11cross1) ... Selecting previously unselected package libstdc++-14-dev-i386-cross. Preparing to unpack .../36-libstdc++-14-dev-i386-cross_14.3.0-5cross3_all.deb ... Unpacking libstdc++-14-dev-i386-cross (14.3.0-5cross3) ... Selecting previously unselected package g++-14-i686-linux-gnu. Preparing to unpack .../37-g++-14-i686-linux-gnu_14.3.0-5cross3_arm64.deb ... Unpacking g++-14-i686-linux-gnu (14.3.0-5cross3) ... Selecting previously unselected package g++-i686-linux-gnu. Preparing to unpack .../38-g++-i686-linux-gnu_4%3a14.2.0-1_arm64.deb ... Unpacking g++-i686-linux-gnu (4:14.2.0-1) ... Selecting previously unselected package crossbuild-essential-i386. Preparing to unpack .../39-crossbuild-essential-i386_12.12_all.deb ... Unpacking crossbuild-essential-i386 (12.12) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../40-libdebhelper-perl_13.25_all.deb ... Unpacking libdebhelper-perl (13.25) ... Selecting previously unselected package libtool. Preparing to unpack .../41-libtool_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../42-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../43-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../44-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../45-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../46-libelf1t64_0.192-4_arm64.deb ... Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../47-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../48-libunistring5_1.3-2_arm64.deb ... Unpacking libunistring5:arm64 (1.3-2) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../49-libxml2-16_2.14.5+dfsg-0.1_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.5+dfsg-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../50-gettext_0.23.1-2+b1_arm64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../51-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../52-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../53-debhelper_13.25_all.deb ... Unpacking debhelper (13.25) ... Selecting previously unselected package libfakeroot:arm64. Preparing to unpack .../54-libfakeroot_1.37.1.2-1_arm64.deb ... Unpacking libfakeroot:arm64 (1.37.1.2-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../55-fakeroot_1.37.1.2-1_arm64.deb ... Unpacking fakeroot (1.37.1.2-1) ... Selecting previously unselected package gcc-14-base:i386. Preparing to unpack .../56-gcc-14-base_14.3.0-5_i386.deb ... Unpacking gcc-14-base:i386 (14.3.0-5) ... Selecting previously unselected package gcc-15-base:i386. Preparing to unpack .../57-gcc-15-base_15.2.0-1_i386.deb ... Unpacking gcc-15-base:i386 (15.2.0-1) ... Selecting previously unselected package help2man. Preparing to unpack .../58-help2man_1.49.3+b1_arm64.deb ... Unpacking help2man (1.49.3+b1) ... Selecting previously unselected package libgcc-s1:i386. Preparing to unpack .../59-libgcc-s1_15.2.0-1_i386.deb ... Unpacking libgcc-s1:i386 (15.2.0-1) ... Selecting previously unselected package libc6:i386. Preparing to unpack .../60-libc6_2.41-12_i386.deb ... Unpacking libc6:i386 (2.41-12) ... Selecting previously unselected package libasan8:i386. Preparing to unpack .../61-libasan8_15.2.0-1_i386.deb ... Unpacking libasan8:i386 (15.2.0-1) ... Selecting previously unselected package libatomic1:i386. Preparing to unpack .../62-libatomic1_15.2.0-1_i386.deb ... Unpacking libatomic1:i386 (15.2.0-1) ... Selecting previously unselected package libbz2-1.0:i386. Preparing to unpack .../63-libbz2-1.0_1.0.8-6_i386.deb ... Unpacking libbz2-1.0:i386 (1.0.8-6) ... Selecting previously unselected package libcrypt1:i386. Preparing to unpack .../64-libcrypt1_1%3a4.4.38-1_i386.deb ... Unpacking libcrypt1:i386 (1:4.4.38-1) ... Selecting previously unselected package libcrypt-dev:i386. Preparing to unpack .../65-libcrypt-dev_1%3a4.4.38-1_i386.deb ... Unpacking libcrypt-dev:i386 (1:4.4.38-1) ... Selecting previously unselected package libc6-dev:i386. Preparing to unpack .../66-libc6-dev_2.41-12_i386.deb ... Unpacking libc6-dev:i386 (2.41-12) ... Selecting previously unselected package libbz2-dev:i386. Preparing to unpack .../67-libbz2-dev_1.0.8-6_i386.deb ... Unpacking libbz2-dev:i386 (1.0.8-6) ... Selecting previously unselected package libgomp1:i386. Preparing to unpack .../68-libgomp1_15.2.0-1_i386.deb ... Unpacking libgomp1:i386 (15.2.0-1) ... Selecting previously unselected package libitm1:i386. Preparing to unpack .../69-libitm1_15.2.0-1_i386.deb ... Unpacking libitm1:i386 (15.2.0-1) ... Selecting previously unselected package libstdc++6:i386. Preparing to unpack .../70-libstdc++6_15.2.0-1_i386.deb ... Unpacking libstdc++6:i386 (15.2.0-1) ... Selecting previously unselected package libubsan1:i386. Preparing to unpack .../71-libubsan1_15.2.0-1_i386.deb ... Unpacking libubsan1:i386 (15.2.0-1) ... Selecting previously unselected package libquadmath0:i386. Preparing to unpack .../72-libquadmath0_15.2.0-1_i386.deb ... Unpacking libquadmath0:i386 (15.2.0-1) ... Selecting previously unselected package libgcc-14-dev:i386. Preparing to unpack .../73-libgcc-14-dev_14.3.0-5_i386.deb ... Unpacking libgcc-14-dev:i386 (14.3.0-5) ... Selecting previously unselected package libjansson4:i386. Preparing to unpack .../74-libjansson4_2.14-2+b3_i386.deb ... Unpacking libjansson4:i386 (2.14-2+b3) ... Selecting previously unselected package libjansson-dev:i386. Preparing to unpack .../75-libjansson-dev_2.14-2+b3_i386.deb ... Unpacking libjansson-dev:i386 (2.14-2+b3) ... Selecting previously unselected package libstdc++-14-dev:i386. Preparing to unpack .../76-libstdc++-14-dev_14.3.0-5_i386.deb ... Unpacking libstdc++-14-dev:i386 (14.3.0-5) ... Selecting previously unselected package tcsh. Preparing to unpack .../77-tcsh_6.24.13-2+b1_arm64.deb ... Unpacking tcsh (6.24.13-2+b1) ... Selecting previously unselected package zlib1g:i386. Preparing to unpack .../78-zlib1g_1%3a1.3.dfsg+really1.3.1-1+b1_i386.deb ... Unpacking zlib1g:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Selecting previously unselected package zlib1g-dev:i386. Preparing to unpack .../79-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_i386.deb ... Unpacking zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Selecting previously unselected package sbuild-build-depends-main-dummy:i386. Preparing to unpack .../80-sbuild-build-depends-main-dummy_0.invalid.0_i386.deb ... Unpacking sbuild-build-depends-main-dummy:i386 (0.invalid.0) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41.1-1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up gcc-14-base:i386 (14.3.0-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:arm64 (2.14.5+dfsg-0.1) ... Setting up binutils-i686-linux-gnu (2.45-4) ... Setting up libdebhelper-perl (13.25) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.19-8) ... Setting up gcc-14-i686-linux-gnu-base:arm64 (14.3.0-5cross3) ... Setting up gcc-14-cross-base (14.3.0-5cross3) ... Setting up file (1:5.46-5) ... Setting up libfakeroot:arm64 (1.37.1.2-1) ... Setting up libelf1t64:arm64 (0.192-4) ... Setting up fakeroot (1.37.1.2-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up linux-libc-dev-i386-cross (6.12.38-1cross1) ... Setting up autotools-dev (20240727.1) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up libc6-i386-cross (2.41-11cross1) ... Setting up cpp-14-i686-linux-gnu (14.3.0-5cross3) ... Setting up gcc-15-cross-base (15.2.0-1cross1) ... Setting up gcc-15-base:i386 (15.2.0-1) ... Setting up libquadmath0-i386-cross (15.2.0-1cross1) ... Setting up tcsh (6.24.13-2+b1) ... update-alternatives: using /bin/tcsh to provide /bin/csh (csh) in auto mode Setting up liblocale-gettext-perl (1.07-7+b1) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-4) ... Setting up libatomic1-i386-cross (15.2.0-1cross1) ... Setting up libgomp1-i386-cross (15.2.0-1cross1) ... Setting up libc6-dev-i386-cross (2.41-11cross1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3+b1) ... Setting up libgcc-s1-i386-cross (15.2.0-1cross1) ... Setting up dh-autoreconf (20) ... Setting up libitm1-i386-cross (15.2.0-1cross1) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up cpp-i686-linux-gnu (4:14.2.0-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libasan8-i386-cross (15.2.0-1cross1) ... Setting up libstdc++6-i386-cross (15.2.0-1cross1) ... Setting up debhelper (13.25) ... Setting up libubsan1-i386-cross (15.2.0-1cross1) ... Setting up libgcc-14-dev-i386-cross (14.3.0-5cross3) ... Setting up gcc-14-i686-linux-gnu (14.3.0-5cross3) ... Setting up gcc-i686-linux-gnu (4:14.2.0-1) ... Setting up libstdc++-14-dev-i386-cross (14.3.0-5cross3) ... Setting up g++-14-i686-linux-gnu (14.3.0-5cross3) ... Setting up g++-i686-linux-gnu (4:14.2.0-1) ... Setting up crossbuild-essential-i386 (12.12) ... Setting up libgcc-s1:i386 (15.2.0-1) ... Setting up libc6:i386 (2.41-12) ... Setting up libasan8:i386 (15.2.0-1) ... Setting up libbz2-1.0:i386 (1.0.8-6) ... Setting up libstdc++6:i386 (15.2.0-1) ... Setting up libitm1:i386 (15.2.0-1) ... Setting up zlib1g:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libcrypt1:i386 (1:4.4.38-1) ... Setting up libgomp1:i386 (15.2.0-1) ... Setting up libjansson4:i386 (2.14-2+b3) ... Setting up libquadmath0:i386 (15.2.0-1) ... Setting up libatomic1:i386 (15.2.0-1) ... Setting up libubsan1:i386 (15.2.0-1) ... Setting up libcrypt-dev:i386 (1:4.4.38-1) ... Setting up libc6-dev:i386 (2.41-12) ... Setting up libgcc-14-dev:i386 (14.3.0-5) ... Setting up libstdc++-14-dev:i386 (14.3.0-5) ... Setting up libjansson-dev:i386 (2.14-2+b3) ... Setting up libbz2-dev:i386 (1.0.8-6) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up sbuild-build-depends-main-dummy:i386 (0.invalid.0) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for debianutils (5.23.2) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (i386 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-37-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) arm64 (aarch64) Toolchain package versions: binutils_2.45-4 dpkg-dev_1.22.21 g++-14_14.3.0-5 gcc-14_14.3.0-5 libc6-dev_2.41-12 libstdc++-14-dev_14.3.0-5 libstdc++-14-dev-i386-cross_14.3.0-5cross3 libstdc++6_15.2.0-1 libstdc++6-i386-cross_15.2.0-1cross1 linux-libc-dev_6.12.38-1 Package versions: apt_3.1.4 apt-utils_3.1.4 autoconf_2.72-3.1 automake_1:1.17-4 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.7 bash_5.2.37-2+b5 binutils_2.45-4 binutils-aarch64-linux-gnu_2.45-4 binutils-common_2.45-4 binutils-gold_2.44-2 binutils-gold-aarch64-linux-gnu_2.44-2 binutils-i686-linux-gnu_2.45-4 bsdextrautils_2.41.1-1 bsdutils_1:2.41.1-1 build-essential_12.12 bzip2_1.0.8-6 coreutils_9.7-3 cpp_4:14.2.0-1 cpp-14_14.3.0-5 cpp-14-aarch64-linux-gnu_14.3.0-5 cpp-14-i686-linux-gnu_14.3.0-5cross3 cpp-aarch64-linux-gnu_4:14.2.0-1 cpp-i686-linux-gnu_4:14.2.0-1 crossbuild-essential-i386_12.12 dash_0.5.12-12 debconf_1.5.91 debhelper_13.25 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_20 dh-strip-nondeterminism_1.14.1-2 diffutils_1:3.10-4 dpkg_1.22.21 dpkg-dev_1.22.21 dwz_0.15-1+b1 fakeroot_1.37.1.2-1 file_1:5.46-5 findutils_4.10.0-3 g++_4:14.2.0-1 g++-14_14.3.0-5 g++-14-aarch64-linux-gnu_14.3.0-5 g++-14-i686-linux-gnu_14.3.0-5cross3 g++-aarch64-linux-gnu_4:14.2.0-1 g++-i686-linux-gnu_4:14.2.0-1 gcc_4:14.2.0-1 gcc-14_14.3.0-5 gcc-14-aarch64-linux-gnu_14.3.0-5 gcc-14-base_14.3.0-5 gcc-14-cross-base_14.3.0-5cross3 gcc-14-i686-linux-gnu_14.3.0-5cross3 gcc-14-i686-linux-gnu-base_14.3.0-5cross3 gcc-15-base_15.2.0-1 gcc-15-cross-base_15.2.0-1cross1 gcc-aarch64-linux-gnu_4:14.2.0-1 gcc-i686-linux-gnu_4:14.2.0-1 gettext_0.23.1-2+b1 gettext-base_0.23.1-2+b1 grep_3.11-4+b1 groff-base_1.23.0-9 gzip_1.13-1 help2man_1.49.3+b1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2+b1 libapt-pkg7.0_3.1.4 libarchive-zip-perl_1.68-1 libasan8_15.2.0-1 libasan8-i386-cross_15.2.0-1cross1 libatomic1_15.2.0-1 libatomic1-i386-cross_15.2.0-1cross1 libattr1_1:2.5.2-3 libaudit-common_1:4.0.5-1 libaudit1_1:4.0.5-1 libbinutils_2.45-4 libblkid1_2.41.1-1 libbz2-1.0_1.0.8-6 libbz2-dev_1.0.8-6 libc-bin_2.41-12 libc-dev-bin_2.41-12 libc6_2.41-12 libc6-dev_2.41-12 libc6-dev-i386-cross_2.41-11cross1 libc6-i386-cross_2.41-11cross1 libcap-ng0_0.8.5-4+b1 libcap2_1:2.75-10+b1 libcc1-0_15.2.0-1 libcrypt-dev_1:4.4.38-1 libcrypt1_1:4.4.38-1 libctf-nobfd0_2.45-4 libctf0_2.45-4 libdb5.3t64_5.3.28+dfsg2-9 libdebconfclient0_0.280 libdebhelper-perl_13.25 libdpkg-perl_1.22.21 libelf1t64_0.192-4 libfakeroot_1.37.1.2-1 libfile-stripnondeterminism-perl_1.14.1-2 libgcc-14-dev_14.3.0-5 libgcc-14-dev-i386-cross_14.3.0-5cross3 libgcc-s1_15.2.0-1 libgcc-s1-i386-cross_15.2.0-1cross1 libgdbm-compat4t64_1.24-2 libgdbm6t64_1.24-2 libgmp10_2:6.3.0+dfsg-3 libgomp1_15.2.0-1 libgomp1-i386-cross_15.2.0-1cross1 libgprofng0_2.45-4 libhogweed6t64_3.10.1-1 libhwasan0_15.2.0-1 libisl23_0.27-1 libitm1_15.2.0-1 libitm1-i386-cross_15.2.0-1cross1 libjansson-dev_2.14-2+b3 libjansson4_2.14-2+b3 liblastlog2-2_2.41.1-1 liblocale-gettext-perl_1.07-7+b1 liblsan0_15.2.0-1 liblz4-1_1.10.0-4 liblzma5_5.8.1-1 libmagic-mgc_1:5.46-5 libmagic1t64_1:5.46-5 libmd0_1.1.0-2+b1 libmount1_2.41.1-1 libmpc3_1.3.1-1+b3 libmpfr6_4.2.2-1 libnettle8t64_3.10.1-1 libpam-modules_1.7.0-5 libpam-modules-bin_1.7.0-5 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5 libpcre2-8-0_10.45-1 libperl5.40_5.40.1-6 libpipeline1_1.5.8-1 libquadmath0_15.2.0-1 libquadmath0-i386-cross_15.2.0-1cross1 libseccomp2_2.6.0-2 libselinux1_3.8.1-1 libsframe2_2.45-4 libsmartcols1_2.41.1-1 libsqlite3-0_3.46.1-7 libssl3t64_3.5.2-1 libstdc++-14-dev_14.3.0-5 libstdc++-14-dev-i386-cross_14.3.0-5cross3 libstdc++6_15.2.0-1 libstdc++6-i386-cross_15.2.0-1cross1 libsystemd0_258~rc3-1 libtinfo6_6.5+20250216-2 libtool_2.5.4-4 libtsan2_15.2.0-1 libubsan1_15.2.0-1 libubsan1-i386-cross_15.2.0-1cross1 libuchardet0_0.0.8-1+b2 libudev1_258~rc3-1 libunistring5_1.3-2 libuuid1_2.41.1-1 libxml2-16_2.14.5+dfsg-0.1 libxxhash0_0.8.3-2 libzstd1_1.5.7+dfsg-1 linux-libc-dev_6.12.38-1 linux-libc-dev-i386-cross_6.12.38-1cross1 login_1:4.16.0-2+really2.41.1-1 login.defs_1:4.17.4-2 m4_1.4.19-8 make_4.4.1-2 man-db_2.13.1-1 mawk_1.3.4.20250131-1 ncurses-base_6.5+20250216-2 ncurses-bin_6.5+20250216-2 openssl-provider-legacy_3.5.2-1 patch_2.8-2 perl_5.40.1-6 perl-base_5.40.1-6 perl-modules-5.40_5.40.1-6 po-debconf_1.0.21+nmu1 rpcsvc-proto_1.4.3-1+b1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2+b1 sensible-utils_0.0.26 sqv_1.3.0-3 sysvinit-utils_3.14-4 tar_1.35+dfsg-3.1 tcsh_6.24.13-2+b1 util-linux_2.41.1-1 xz-utils_5.8.1-1 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: bedops Binary: bedops, bedops-doc Architecture: any all Version: 2.4.42+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou , Étienne Mollier Homepage: https://github.com/bedops/bedops Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/bedops Vcs-Git: https://salsa.debian.org/med-team/bedops.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), help2man, libbz2-dev, libjansson-dev, zlib1g-dev, tcsh Build-Depends-Indep: sphinx-common, dh-sequence-sphinxdoc, libjs-mathjax, python3-sphinx Package-List: bedops deb science optional arch=any bedops-doc deb doc optional arch=all Checksums-Sha1: 7103ff27c84a74043c6cee3faa38bde7d3a94929 13467276 bedops_2.4.42+dfsg.orig.tar.xz afe246e3af2dd0edf30d4ddba169d9e06663ed3e 10812 bedops_2.4.42+dfsg-1.debian.tar.xz Checksums-Sha256: 0f9c01b7bb95590ea79283d6083b3908450e269ef486e29e2548a4f58d6e6ff4 13467276 bedops_2.4.42+dfsg.orig.tar.xz 48dd780c779e4886594f7dae05c57c53f4bdb60ab87e4bbfbf9c9d37f8fa1156 10812 bedops_2.4.42+dfsg-1.debian.tar.xz Files: 76c45fc85e357c97440ca18e479f3610 13467276 bedops_2.4.42+dfsg.orig.tar.xz d8a15447160b28ad53552dcf2633838f 10812 bedops_2.4.42+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJHBAEBCgAxFiEE3z4uQkp+J5wuSwI6ucKa7rL0UKcFAmiiV4YTHG1vZWxsZXJA ZGViaWFuLm9yZwAKCRC5wprusvRQpydhD/9tzmkxZb3V4w4rA8h73dDzFx0czzoe a9+J6pnjzTmP8Pz40KzBI1/UFFCzH/I14XdAJU6sICuitDnBQyfCrSzR7UB0lOjZ cVEl0MzY3WtbFJpZzW3X2Kz9kmaCgqw4SAWngyEpc+T3zj2TPiJ/gcOOxzTrfmF3 dEhURQcvVSNi1hFhqRLcz5Z0XYd1C7QXlB8mbQciF6j4zsbRdIoqHiHVyBZg8feA TQyigF7aLQ9ZdE27QNk3GRuOuiZRIf+rGM5kmTXjCVCTSmVjIAPRYOyylGSCJjQn iW4k6AvBdYkB42f/FH7Gasrsnr79LvH96fOCnZKeg3tkaKZSy1tpy6xIsGEcGPEU RorQc0MS2RsmMx5Wjcyx2LXsiN7KPZyBZcbralaM969zQF0IFFIZ8oFd7DEni5Qd tYKGWbJEmYL+MBhdUCvTlPUkMJNzVmNDd9bgKkSALijNJ7ObN/QZdQTDpC5ujeM3 zNlcGkTynyHtzIbMnc7IwwrckDtmje8L7u5yJjG0JJO0BG6WapBkXMQQc52KnXaV mowUickkeouZH6HrJn6OI5BPiV+G0J2X2B4cPgJaIMXW4VmBcLC5hLZ7hmk4m+Ku AQfwbxdxpCCyQaZN8MH05fSAq6wXktGboW+l+EYPhuzOzoyPxT2Os+IhVEieciOu mJiWx8Mb5Eg11g== =nrPB -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./bedops_2.4.42+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting bedops in /<> dpkg-source: info: unpacking bedops_2.4.42+dfsg.orig.tar.xz dpkg-source: info: unpacking bedops_2.4.42+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying tests_use_installed_binaries.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying use_debian_libs dpkg-source: info: applying parallel.patch dpkg-source: info: applying adapt_to_new_sphinx.patch dpkg-source: info: applying intersphinx Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.i386 DEB_BUILD_OPTIONS=nocheck HOME=/var/lib/sbuild LANG=en_GB.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/<> SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -ai386 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package bedops dpkg-buildpackage: info: source version 2.4.42+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-architecture: warning: specified GNU system type i686-linux-gnu does not match CC system type aarch64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean make -j1 clean make[2]: Entering directory '/<>' make clean -f system.mk/Makefile.linux make[3]: Entering directory '/<>' rm -rf bin rm -rf bin rm -rf bin rm -rf modules make -C applications/bed/bedextract/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/bedextract/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/bedextract/src' make -C applications/bed/bedmap/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/bedmap/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/bedmap/src' make -C applications/bed/bedops/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/bedops/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/bedops/src' make -C applications/bed/closestfeats/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/closestfeats/src' rm -rf objects_typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/closestfeats/src' make -C applications/bed/conversion/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/conversion/src' rm -rf ../bin rm -rf objects rm -rf *.so *~ make[4]: Leaving directory '/<>/applications/bed/conversion/src' make -C applications/bed/sort-bed/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/sort-bed/src' rm -rf objects-typical rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/sort-bed/src' make -C applications/bed/starch/src -f Makefile clean make[4]: Entering directory '/<>/applications/bed/starch/src' rm -rf ../lib rm -f ../lib/libstarch_debug.a rm -f ../lib/libstarch_gprof.a rm -rf objects rm -rf ../bin make[4]: Leaving directory '/<>/applications/bed/starch/src' rm -rf third-party/bzip2-1.0.6 rm -f third-party/bzip2 rm -rf third-party/jansson-2.6 rm -f third-party/jansson rm -rf third-party/zlib-1.3.1 rm -f third-party/zlib rm -rf bin make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' rm -rf docs/_build/ make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a dh_auto_build -a make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=i686-linux-gnu-pkg-config CXX=i686-linux-gnu-g\+\+ CC=i686-linux-gnu-gcc make[1]: Entering directory '/<>' make -f system.mk/Makefile.linux make[2]: Entering directory '/<>' #bzcat | tar -x -C third-party #cd third-party/jansson-2.6 && ./configure --prefix=/<>/third-party/jansson-2.6 && make && make install && cd /<> && rm -f jansson && ln -sf jansson-2.6 third-party/jansson #bzcat | tar -x -C third-party #cd third-party/bzip2-1.0.6 && make libbz2.a && cd /<> && rm -f bzip2 && ln -sf bzip2-1.0.6 third-party/bzip2 #bzcat | tar -x -C third-party #cd third-party/zlib-1.3.1 && ./configure --static && make && cd /<> && rm -f zlib && ln -sf zlib-1.3.1 third-party/zlib make build -f /<>/system.mk/Makefile.linux make[3]: Entering directory '/<>' make -C applications/bed/bedextract/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/bedextract/src' mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(Metadata**, const FILE*, CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, Boolean, Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, Metadata**, CompressionType*, ArchiveVersion**, uint64_t*, Boolean*, Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:32: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:57: note: length computed here 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:87:13: warning: variable ‘chrFound’ set but not used [-Wunused-but-set-variable] 87 | Boolean chrFound = kStarchFalse; | ^~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:88:13: warning: variable ‘isEmpty’ set but not used [-Wunused-but-set-variable] 88 | Boolean isEmpty = kStarchFalse; | ^~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:83: note: length computed here 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:75: note: length computed here 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:75: note: length computed here 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: note: length computed here 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && i686-linux-gnu-g++ -o ../bin/bedextract-typical -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -s -Wall -pedantic -O3 -std=c++11 objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -ljansson -lz -lbz2 ExtractRows.cpp In file included from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ExtractRows.cpp:40: ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:38:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 38 | : public std::binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/i686-linux-gnu/include/c++/14/string:49, from /usr/i686-linux-gnu/include/c++/14/bits/locale_classes.h:40, from /usr/i686-linux-gnu/include/c++/14/bits/ios_base.h:41, from /usr/i686-linux-gnu/include/c++/14/ios:44, from /usr/i686-linux-gnu/include/c++/14/istream:40, from /usr/i686-linux-gnu/include/c++/14/fstream:40, from ExtractRows.cpp:29: /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:52:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:77:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 77 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:88:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 88 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:101:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 101 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:165:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 165 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:242:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 242 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:254:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 254 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:264:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 264 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:274:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 274 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:284:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 284 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:294:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 294 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:302:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 302 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44, from ExtractRows.cpp:43: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘void starch::Starch::setCurrentChromosome(char*)’, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const std::string&, Ext::PooledMemory&, const std::string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:136:36: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In member function ‘void starch::Starch::setCurrentChromosome(char*)’, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:292:36, inlined from ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:267:24, inlined from ‘std::pair Bed::find_bed_range(FILE*, TargetIter, TargetIter, Op) [with TargetIter = bed_check_iterator*, 16>; Op = Visitors::BedHelpers::Println]’ at ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:102:64: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/bedextract/src' make -C applications/bed/bedmap/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/bedmap/src' mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(Metadata**, const FILE*, CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, Boolean, Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, Metadata**, CompressionType*, ArchiveVersion**, uint64_t*, Boolean*, Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:32: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:57: note: length computed here 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:87:13: warning: variable ‘chrFound’ set but not used [-Wunused-but-set-variable] 87 | Boolean chrFound = kStarchFalse; | ^~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:88:13: warning: variable ‘isEmpty’ set but not used [-Wunused-but-set-variable] 88 | Boolean isEmpty = kStarchFalse; | ^~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:83: note: length computed here 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:75: note: length computed here 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:75: note: length computed here 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: note: length computed here 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && i686-linux-gnu-g++ -o ../bin/bedmap-typical -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -s -Wall -pedantic -O3 -std=c++11 objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -ljansson -lz -lbz2 Bedmap.cpp In file included from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:36, from ../../../../interfaces/general-headers/algorithm/../../src/algorithm/sweep/WindowSweepImpl.cpp:27, from ../../../../interfaces/general-headers/algorithm/WindowSweep.hpp:91, from ../../../../interfaces/general-headers/algorithm/visitors/bed/BedBaseVisitor.hpp:31, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:27, from Bedmap.cpp:37: ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:38:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 38 | : public std::binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/i686-linux-gnu/include/c++/14/string:49, from /usr/i686-linux-gnu/include/c++/14/bits/locale_classes.h:40, from /usr/i686-linux-gnu/include/c++/14/bits/ios_base.h:41, from /usr/i686-linux-gnu/include/c++/14/ios:44, from /usr/i686-linux-gnu/include/c++/14/istream:40, from /usr/i686-linux-gnu/include/c++/14/fstream:40, from Bedmap.cpp:29: /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:52:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:77:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 77 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:88:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 88 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:101:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 101 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:165:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 165 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:242:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 242 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:254:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 254 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:264:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 264 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:274:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 274 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:284:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 284 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:294:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 294 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:302:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 302 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/algorithm/visitors/NumericalVisitors.hpp:32, from ../../../../interfaces/general-headers/algorithm/visitors/BedVisitors.hpp:34: ../../../../interfaces/general-headers/algorithm/visitors/numerical/MedianAbsoluteDeviationVisitor.hpp:43:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 43 | struct abs_diff : std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch_minmem.hpp:39: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/bedmap/src' make -C applications/bed/bedops/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/bedops/src' mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(Metadata**, const FILE*, CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, Boolean, Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, Metadata**, CompressionType*, ArchiveVersion**, uint64_t*, Boolean*, Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:32: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:57: note: length computed here 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:87:13: warning: variable ‘chrFound’ set but not used [-Wunused-but-set-variable] 87 | Boolean chrFound = kStarchFalse; | ^~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:88:13: warning: variable ‘isEmpty’ set but not used [-Wunused-but-set-variable] 88 | Boolean isEmpty = kStarchFalse; | ^~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:83: note: length computed here 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:75: note: length computed here 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:75: note: length computed here 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: note: length computed here 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && i686-linux-gnu-g++ -o ../bin/bedops-typical -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -s -Wall -pedantic -O3 -std=c++11 objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -ljansson -lz -lbz2 Bedops.cpp In file included from ../../../../interfaces/general-headers/algorithm/visitors/helpers/ProcessBedVisitorRow.hpp:33, from Bedops.cpp:40: ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:38:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 38 | : public std::binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/i686-linux-gnu/include/c++/14/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/14/deque:67, from Bedops.cpp:27: /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:52:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:77:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 77 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:88:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 88 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:101:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 101 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:165:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 165 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:242:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 242 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:254:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 254 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:264:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 264 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:274:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 274 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:284:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 284 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:294:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 294 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:302:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 302 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42, from Bedops.cpp:41: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/bedops/src' make -C applications/bed/closestfeats/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/closestfeats/src' mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/measurement/NaN.cpp -o objects_typical/NaN.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchConstants.c -o objects_typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects_typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchHelpers.c -o objects_typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(Metadata**, const FILE*, CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects_typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, Boolean, Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, Metadata**, CompressionType*, ArchiveVersion**, uint64_t*, Boolean*, Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:32: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:57: note: length computed here 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects_typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:87:13: warning: variable ‘chrFound’ set but not used [-Wunused-but-set-variable] 87 | Boolean chrFound = kStarchFalse; | ^~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:88:13: warning: variable ‘isEmpty’ set but not used [-Wunused-but-set-variable] 88 | Boolean isEmpty = kStarchFalse; | ^~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:83: note: length computed here 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:75: note: length computed here 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:75: note: length computed here 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: note: length computed here 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects_typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects_typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p ../bin && i686-linux-gnu-g++ -o ../bin/closest-features-typical -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -s -Wall -pedantic -O3 -std=c++11 objects_typical/NaN.o objects_typical/starchConstants.o objects_typical/starchFileHelpers.o objects_typical/starchHelpers.o objects_typical/starchMetadataHelpers.o objects_typical/unstarchHelpers.o objects_typical/starchSha1Digest.o objects_typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers -ljansson -lz -lbz2 ClosestFeature.cpp In file included from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:39, from ClosestFeature.cpp:38: ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:38:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 38 | : public std::binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/i686-linux-gnu/include/c++/14/bits/refwrap.h:39, from /usr/i686-linux-gnu/include/c++/14/deque:67, from ClosestFeature.cpp:27: /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:52:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:77:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 77 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:88:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 88 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:101:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 101 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:165:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 165 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:242:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 242 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:254:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 254 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:264:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 264 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:274:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 274 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:284:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 284 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:294:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 294 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:302:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 302 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/AllocateIterator_BED_starch.hpp:42: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -rf objects_typical make[4]: Leaving directory '/<>/applications/bed/closestfeats/src' make -C applications/bed/conversion/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/conversion/src' mkdir -p ../bin && i686-linux-gnu-gcc -Wall -Wextra -pedantic -std=c99 -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -iquote"/<>/applications/bed/conversion/src" -iquote"../../../../interfaces/general-headers" convert2bed.c -o ../bin/convert2bed-typical -lpthread convert2bed.c: In function ‘c2b_process_intermediate_bytes_by_lines’: convert2bed.c:6745:103: warning: format ‘%zu’ expects argument of type ‘size_t’, but argument 3 has type ‘long unsigned int’ [-Wformat=] 6745 | fprintf(stderr, "Error: Could not find newline in intermediate buffer; check input [%zu | %zu | %zu]\n", (unsigned long) src_bytes_read, (unsigned long) remainder_length, (unsigned long) src_buffer_capacity); | ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | | unsigned int long unsigned int | %lu convert2bed.c:6745:109: warning: format ‘%zu’ expects argument of type ‘size_t’, but argument 4 has type ‘long unsigned int’ [-Wformat=] 6745 | fprintf(stderr, "Error: Could not find newline in intermediate buffer; check input [%zu | %zu | %zu]\n", (unsigned long) src_bytes_read, (unsigned long) remainder_length, (unsigned long) src_buffer_capacity); | ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | | unsigned int long unsigned int | %lu convert2bed.c:6745:115: warning: format ‘%zu’ expects argument of type ‘size_t’, but argument 5 has type ‘long unsigned int’ [-Wformat=] 6745 | fprintf(stderr, "Error: Could not find newline in intermediate buffer; check input [%zu | %zu | %zu]\n", (unsigned long) src_bytes_read, (unsigned long) remainder_length, (unsigned long) src_buffer_capacity); | ~~^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | | unsigned int long unsigned int | %lu convert2bed.c: In function ‘c2b_line_convert_sam_to_bed_unsorted_with_split_operation’: convert2bed.c:5046:25: warning: ‘sprintf’ argument 3 overlaps destination object ‘’ [-Wrestrict] 5046 | sprintf(c2b_globals.sam->element->modified_cigar, "%s%d%c", c2b_globals.sam->element->modified_cigar, bases, current_op); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ convert2bed.c:5072:21: warning: ‘sprintf’ argument 3 overlaps destination object ‘’ [-Wrestrict] 5072 | sprintf(c2b_globals.sam->element->modified_cigar, "%s%d%c", c2b_globals.sam->element->modified_cigar, bases, current_op); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ convert2bed.c:5090:21: warning: ‘sprintf’ argument 3 overlaps destination object ‘’ [-Wrestrict] 5090 | sprintf(c2b_globals.sam->element->modified_cigar, "%s%d%c", c2b_globals.sam->element->modified_cigar, bases, current_op); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ convert2bed.c:4979:25: warning: ‘sprintf’ argument 3 overlaps destination object ‘’ [-Wrestrict] 4979 | sprintf(c2b_globals.sam->element->modified_cigar, "%s%d%c", c2b_globals.sam->element->modified_cigar, bases, current_op); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ convert2bed.c:5003:21: warning: ‘sprintf’ argument 3 overlaps destination object ‘’ [-Wrestrict] 5003 | sprintf(c2b_globals.sam->element->modified_cigar, "%s%d%c", c2b_globals.sam->element->modified_cigar, bases, current_op); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -rf objects make[4]: Leaving directory '/<>/applications/bed/conversion/src' make -C applications/bed/sort-bed/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/sort-bed/src' mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchConstants.c -o objects-typical/starchConstants.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects-typical/starchFileHelpers.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchHelpers.c -o objects-typical/starchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(Metadata**, const FILE*, CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects-typical/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, Boolean, Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, Metadata**, CompressionType*, ArchiveVersion**, uint64_t*, Boolean*, Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:32: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:57: note: length computed here 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects-typical/unstarchHelpers.o -iquote../../../../interfaces/general-headers ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:87:13: warning: variable ‘chrFound’ set but not used [-Wunused-but-set-variable] 87 | Boolean chrFound = kStarchFalse; | ^~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:88:13: warning: variable ‘isEmpty’ set but not used [-Wunused-but-set-variable] 88 | Boolean isEmpty = kStarchFalse; | ^~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘void starch::UNSTARCH_printMetadataSignature(const unsigned char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2286:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2286 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2288:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2288 | static_cast( mdSha1BufferLength )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2650:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2650 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2652:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2652 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:83: note: length computed here 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:75: note: length computed here 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:75: note: length computed here 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: note: length computed here 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects-typical/starchSha1Digest.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects-typical/starchBase64Coding.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 SortDetails.cpp -o objects-typical/SortDetails.o -iquote../../../../interfaces/general-headers SortDetails.cpp: In function ‘ChromBedData* initializeChromBedData(char*, double*)’: SortDetails.cpp:250:12: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 250 | strncpy(chrom->chromName, chromBuf, chromBufLen); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SortDetails.cpp:249:25: note: length computed here 249 | chromBufLen = strlen(chromBuf); // we know >= 1 | ~~~~~~^~~~~~~~~~ SortDetails.cpp: In function ‘void lexSortBedData(BedData*)’: SortDetails.cpp:1343:20: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1343 | strncpy(chromBuf, beds->chroms[i]->chromName, chromBufLen); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SortDetails.cpp:1342:33: note: length computed here 1342 | chromBufLen = strlen(beds->chroms[i]->chromName); // we know >= 1 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘ChromBedData* initializeChromBedData(char*, double*)’, inlined from ‘int processData(const char**, unsigned int, double, char*, bool, bool)’ at SortDetails.cpp:909:59: SortDetails.cpp:250:12: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 250 | strncpy(chrom->chromName, chromBuf, chromBufLen); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ SortDetails.cpp:249:25: note: length computed here 249 | chromBufLen = strlen(chromBuf); // we know >= 1 | ~~~~~~^~~~~~~~~~ mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 Sort.cpp -o objects-typical/Sort.o -iquote../../../../interfaces/general-headers mkdir -p objects-typical && i686-linux-gnu-g++ -c -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -Wextra -pedantic -ansi -O3 -std=c++11 CheckSort.cpp -o objects-typical/CheckSort.o -iquote../../../../interfaces/general-headers In file included from ../../../../interfaces/general-headers/algorithm/bed/FindBedRange.hpp:32, from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:41, from CheckSort.cpp:28: ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:38:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 38 | : public std::binary_function { | ^~~~~~~~~~~~~~~ In file included from /usr/i686-linux-gnu/include/c++/14/string:49, from /usr/i686-linux-gnu/include/c++/14/bits/locale_classes.h:40, from /usr/i686-linux-gnu/include/c++/14/bits/ios_base.h:41, from /usr/i686-linux-gnu/include/c++/14/ios:44, from /usr/i686-linux-gnu/include/c++/14/istream:40, from /usr/i686-linux-gnu/include/c++/14/fstream:40, from CheckSort.cpp:25: /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:52:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:77:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 77 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:88:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 88 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:101:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 101 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:165:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 165 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:242:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 242 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:254:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 254 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:264:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 264 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:274:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 274 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:284:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 284 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:294:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 294 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCompare.hpp:302:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 302 | : public std::binary_function { | ^~~~~~~~~~~~~~~ /usr/i686-linux-gnu/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:44: ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::listJSONMetadata(FILE*, FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1226:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1226 | static_cast( getArchiveType() ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1230:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1230 | static_cast( getArchiveHeaderFlag() ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1231:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1231 | static_cast( getArchiveShowNewlineFlag() )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::extractAllData(const std::string&, FILE*)’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:2003:51: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2003 | static_cast( getArchiveHeaderFlag() )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:2014:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2014 | static_cast( getArchiveHeaderFlag() )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp: In instantiation of ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’: CheckSort.cpp:51:28: required from here 51 | pool.release(*start++); | ^~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:268:12: warning: implicitly-declared ‘Bed::bed_check_iterator*, 16>::bed_check_iterator(const Bed::bed_check_iterator*, 16>&)’ is deprecated [-Wdeprecated-copy] 268 | auto __tmp = *this; | ^~~~~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:308:10: note: because ‘Bed::bed_check_iterator*, 16>’ has user-provided ‘bool Bed::bed_check_iterator::operator=(const Bed::bed_check_iterator&) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ 308 | bool operator=(const bed_check_iterator& b); | ^~~~~~~~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:295:14: warning: implicitly-declared ‘Bed::bed_check_iterator*, 16>::bed_check_iterator(const Bed::bed_check_iterator*, 16>&)’ is deprecated [-Wdeprecated-copy] 295 | return __tmp; | ^~~~~ ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:308:10: note: because ‘Bed::bed_check_iterator*, 16>’ has user-provided ‘bool Bed::bed_check_iterator::operator=(const Bed::bed_check_iterator&) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ 308 | bool operator=(const bed_check_iterator& b); | ^~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp: In member function ‘int starch::Starch::zReadLine()’: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:1913:118: note: length computed here 1913 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In static member function ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(FILE*)’, inlined from ‘static bool starch::Starch::hasStarchRevision1LegacyHeader(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:634:52, inlined from ‘static bool starch::Starch::isStarch(std::string&)’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:698:56, inlined from ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const std::string&, Ext::PooledMemory&, const std::string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:92:90: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:49: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:541:76: note: length computed here 541 | std::strncpy(_recTokBuf, _token, strlen(_token) + 1); | ~~~~~~^~~~~~~~ In member function ‘void starch::Starch::setCurrentChromosome(char*)’, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator::bed_check_iterator(std::istream&, const std::string&, Ext::PooledMemory&, const std::string&, bool) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:136:36: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ In member function ‘void starch::Starch::setCurrentChromosome(char*)’, inlined from ‘const char* starch::Starch::getCurrentChromosome()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:718:130, inlined from ‘bool starch::Starch::isEOF()’ at ../../../../interfaces/general-headers/data/starch/starchApi.hpp:729:80, inlined from ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:292:36, inlined from ‘Bed::bed_check_iterator Bed::bed_check_iterator::operator++(int) [with BedType = Bed::BasicCoords; unsigned int SZ = 16]’ at ../../../../interfaces/general-headers/data/bed/BedCheckIterator.hpp:267:24, inlined from ‘int checkSort(const char**, unsigned int)’ at CheckSort.cpp:51:28: ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/general-headers/data/starch/starchApi.hpp:887:55: note: length computed here 887 | strncpy(currentChromosome, _cC, strlen(_cC) + 1); | ~~~~~~^~~~~ mkdir -p ../bin && i686-linux-gnu-g++ -o ../bin/sort-bed-typical -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -s -Wall -Wextra -pedantic -ansi -O3 -std=c++11 -iquote../../../../interfaces/general-headers objects-typical/starchConstants.o objects-typical/starchFileHelpers.o objects-typical/starchHelpers.o objects-typical/starchMetadataHelpers.o objects-typical/unstarchHelpers.o objects-typical/starchSha1Digest.o objects-typical/starchBase64Coding.o objects-typical/SortDetails.o objects-typical/Sort.o objects-typical/CheckSort.o -ljansson -lz -lbz2 mkdir -p ../bin && cp update-sort-bed-slurm.py ../bin/update-sort-bed-slurm-typical mkdir -p ../bin && cp update-sort-bed-starch-slurm.py ../bin/update-sort-bed-starch-slurm-typical mkdir -p ../bin && cp update-sort-bed-migrate-candidates.py ../bin/update-sort-bed-migrate-candidates-typical rm -rf objects-typical make[4]: Leaving directory '/<>/applications/bed/sort-bed/src' make -C applications/bed/starch/src -f Makefile build make[4]: Entering directory '/<>/applications/bed/starch/src' mkdir -p objects i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c ../../../../interfaces/src/data/starch/starchConstants.c -o objects/starchConstants.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p objects i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c ../../../../interfaces/src/data/starch/unstarchHelpers.c -o objects/unstarchHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:87:13: warning: variable ‘chrFound’ set but not used [-Wunused-but-set-variable] 87 | Boolean chrFound = kStarchFalse; | ^~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:88:13: warning: variable ‘isEmpty’ set but not used [-Wunused-but-set-variable] 88 | Boolean isEmpty = kStarchFalse; | ^~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘void starch::UNSTARCH_printMetadataSignature(const unsigned char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2286:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2286 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2288:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2288 | static_cast( mdSha1BufferLength )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2650:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2650 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2652:33: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2652 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_createInverseTransformTokens(const unsigned char*, char, char*, char*)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1661:83: note: length computed here 1661 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1688:75: note: length computed here 1688 | strncpy(elemTok2, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:1677:75: note: length computed here 1677 | strncpy(elemTok1, reinterpret_cast( buffer ), strlen(reinterpret_cast( buffer )) + 1); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘int starch::UNSTARCH_extractDataWithGzip(FILE**, FILE*, const char*, const Metadata*, uint64_t, Boolean)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:208:32: note: length computed here 208 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c: In function ‘char* starch::UNSTARCH_observedSignatureForChromosome(FILE**, const Metadata*, uint64_t, const char*, CompressionType)’: ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: warning: ‘char* strncpy(char*, const char*, size_t)’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/unstarchHelpers.c:2569:40: note: length computed here 2569 | strncpy(reinterpret_cast( zLineBuf ), reinterpret_cast( zRemainderBuf ), strlen(reinterpret_cast( zRemainderBuf ))); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p objects i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c ../../../../interfaces/src/data/starch/starchHelpers.c -o objects/starchHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2171:88: warning: left shift count >= width of type [-Wshift-count-overflow] 2171 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2908:68: warning: left shift count >= width of type [-Wshift-count-overflow] 2908 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderlessBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:3434:88: warning: left shift count >= width of type [-Wshift-count-overflow] 3434 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:4202:68: warning: left shift count >= width of type [-Wshift-count-overflow] 4202 | bzBytesWritten = static_cast( bzBytesWrittenHi32 ) << 32 | bzBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_createTransformTokensForHeaderlessInput(const char*, char, char**, int64_t*, int64_t*, char**)’: ../../../../interfaces/src/data/starch/starchHelpers.c:560:28: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:560:83: note: length computed here 560 | strncpy(*chr, reinterpret_cast( buffer ), strlen(buffer) + 1); | ~~~~~~^~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH_transformInput(Metadata**, const FILE*, CompressionType, const char*, const char*)’: ../../../../interfaces/src/data/starch/starchHelpers.c:964:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:964:98: note: length computed here 964 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c: In function ‘int starch::STARCH2_transformHeaderedBEDInput(const FILE*, Metadata**, CompressionType, const char*, const char*, Boolean, Boolean, Bed::LineCountType)’: ../../../../interfaces/src/data/starch/starchHelpers.c:2464:28: warning: ‘char* strncat(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchHelpers.c:2464:98: note: length computed here 2464 | strncat(nonCoordLineBuf, reinterpret_cast( chromosome ), strlen(chromosome) + 1); | ~~~~~~^~~~~~~~~~~~ mkdir -p objects i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c ../../../../interfaces/src/data/starch/starchMetadataHelpers.c -o objects/starchMetadataHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_updateMetadataForChromosome(Metadata**, char*, char*, uint64_t, Bed::LineCountType, Bed::BaseCountType, Bed::BaseCountType, Boolean, Boolean, char*, Bed::LineLengthType)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:20: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:311:47: note: length computed here 311 | strncpy(iter->filename, fn, strlen(fn) + 1); | ~~~~~~^~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:24: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:330:59: note: length computed here 330 | strncpy(iter->signature, signature, strlen(signature) + 1); | ~~~~~~^~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c: In function ‘int starch::STARCH_readLegacyMetadata(const char*, Metadata**, CompressionType*, ArchiveVersion**, uint64_t*, Boolean*, Boolean)’: ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:32: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../../../../interfaces/src/data/starch/starchMetadataHelpers.c:2221:57: note: length computed here 2221 | strncpy(recTokBuf, token, strlen(token) + 1); | ~~~~~~^~~~~~~ mkdir -p objects i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c ../../../../interfaces/src/data/starch/starchFileHelpers.c -o objects/starchFileHelpers.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p objects i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c ../../../../interfaces/src/data/starch/starchSha1Digest.c -o objects/starchSha1Digest.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p objects i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c ../../../../interfaces/src/data/starch/starchBase64Coding.c -o objects/starchBase64Coding.o -iquote../../../../interfaces/general-headers -iquote../../../.. mkdir -p ../lib ar rcs ../lib/libstarch.a objects/starchConstants.o objects/unstarchHelpers.o objects/starchHelpers.o objects/starchMetadataHelpers.o objects/starchFileHelpers.o objects/starchSha1Digest.o objects/starchBase64Coding.o mkdir -p ../bin i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c starch.c -o objects/starch.o -iquote../../../../interfaces/general-headers -iquote../../../.. starch.c: In function ‘int main(int, char**)’: starch.c:106:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 106 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:121:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 121 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:123:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 123 | static_cast( kStarchFinalizeTransformTrue ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:146:40: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 146 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:161:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 161 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:163:50: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 163 | static_cast( kStarchFinalizeTransformTrue ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:191:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 191 | static_cast( type ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:194:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 194 | static_cast( bedGeneratePerChrSignatureFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:195:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 195 | static_cast( bedHeaderFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:196:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 196 | static_cast( bedReportProgressFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starch.c:197:36: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 197 | static_cast( bedReportProgressN )) != STARCH_EXIT_SUCCESS) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s objects/starch.o -o ../bin/starch-typical ../lib/libstarch.a -ljansson -lz -lbz2 mkdir -p ../bin i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c unstarch.c -o objects/unstarch.o -iquote../../../../interfaces/general-headers -iquote../../../.. unstarch.c: In function ‘int main(int, char**)’: unstarch.c:401:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 401 | static_cast( metadataOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:402:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 402 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:422:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 422 | static_cast( metadataOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:423:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 423 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:452:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 452 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:453:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 453 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:473:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 473 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:474:58: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 474 | static_cast( headerFlag )) != 0) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:567:39: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 567 | UNSTARCH_printCompressionType(static_cast( type )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:798:78: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 798 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:809:82: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 809 | static_cast( sizeof(starchRevision2HeaderBytes) ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c: In function ‘void starch::UNSTARCH_printMetadataSha1Signature(unsigned char*)’: unstarch.c:1334:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1334 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ unstarch.c:1336:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1336 | static_cast( sha1BufferLength )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s objects/unstarch.o -o ../bin/unstarch-typical ../lib/libstarch.a -ljansson -lz -lbz2 mkdir -p ../bin i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c starchcat.c -o objects/starchcat.o -iquote../../../../interfaces/general-headers -iquote../../../.. In file included from /usr/i686-linux-gnu/include/c++/14/cassert:44, from starchcat.c:33: starchcat.c: In function ‘int main(int, char**)’: starchcat.c:136:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 136 | assert( STARCHCAT_allocMetadataRecords ( &mdRecords, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:137:75: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 137 | assert( STARCHCAT_allocMetadataJSONObjects ( &metadataJSONs, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:138:87: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 138 | assert( STARCHCAT_buildMetadataRecords ( &metadataJSONs, &mdRecords, static_cast( firstArgc ), static_cast( argc ), const_cast( argv ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:138:133: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 138 | assert( STARCHCAT_buildMetadataRecords ( &metadataJSONs, &mdRecords, static_cast( firstArgc ), static_cast( argc ), const_cast( argv ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:139:75: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 139 | assert( STARCHCAT_checkMetadataJSONVersions ( &metadataJSONs, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:140:145: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 140 | assert( STARCHCAT_buildUniqueChromosomeList ( &chromosomes, &numChromosomes, reinterpret_cast( mdRecords ), static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:141:69: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 141 | assert( STARCHCAT_allocChromosomeSummary ( &summary, static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:142:124: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 142 | assert( STARCHCAT_buildChromosomeSummary ( &summary, reinterpret_cast( mdRecords ), static_cast( numRecords ), const_cast( chromosomes ), static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:142:213: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 142 | assert( STARCHCAT_buildChromosomeSummary ( &summary, reinterpret_cast( mdRecords ), static_cast( numRecords ), const_cast( chromosomes ), static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:143:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 143 | assert( STARCHCAT_allocChromosomeSummaries ( &summaries, static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:144:127: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 144 | assert( STARCHCAT_buildChromosomeSummaries ( &summaries, reinterpret_cast( summary ), static_cast( numChromosomes ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:164:61: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 164 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:178:61: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 178 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:223:60: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 223 | assert( STARCHCAT_freeMetadataRecords( &mdRecords, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:233:68: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 233 | assert (STARCHCAT_freeMetadataJSONObjects( &metadataJSONs, static_cast( numRecords ) ) ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_rewriteInputRecordToOutput(Metadata**, const char*, CompressionType, const char*, const MetadataRecord*, size_t*, Boolean, Boolean, Bed::LineCountType)’: starchcat.c:1338:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1338 | UNSTARCH_reverseTransformCoordinates( static_cast( t_lineIdx ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:1806:71: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 1806 | UNSTARCH_reverseTransformCoordinates( static_cast( t_lineIdx ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2131:78: warning: left shift count >= width of type [-Wshift-count-overflow] 2131 | bzOutBytesWritten = static_cast( bzOutBytesWrittenHi32 ) << 32 | bzOutBytesWrittenLo32; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ starchcat.c: In function ‘int starch::STARCHCAT_rewriteInputRecordToOutput(Metadata**, const char*, CompressionType, const char*, const MetadataRecord*)’: starchcat.c:2450:25: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2450 | static_cast( inRec->mdOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2451:25: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2451 | static_cast( inRec->hFlag )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2471:28: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2471 | static_cast( inRec->mdOffset ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2472:28: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2472 | static_cast( inRec->hFlag )) != 0 ) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2509:23: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2509 | static_cast( outType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:2511:23: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 2511 | static_cast( kStarchFinalizeTransformFalse ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_mergeInputRecordsToOutput(const char*, Metadata**, const char*, CompressionType, const ChromosomeSummary*, size_t*)’: starchcat.c:3152:54: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 3152 | if (STARCHCAT2_setupBzip2InputStream(static_cast( inRecIdx ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:3316:69: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 3316 | static_cast( summary->numRecords ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:3455:77: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 3455 | static_cast( flushZStreamFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT_mergeInputRecordsToOutput(Metadata**, const char*, CompressionType, const ChromosomeSummary*)’: starchcat.c:4265:43: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4265 | static_cast( outType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4267:43: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4267 | static_cast( kStarchFinalizeTransformFalse ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT_mergeChromosomeStreams(const ChromosomeSummaries*, CompressionType, const char*)’: starchcat.c:4402:60: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4402 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4420:63: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4420 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4447:57: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4447 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:4479:39: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4479 | static_cast( hFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT_freeChromosomeSummaries(ChromosomeSummaries**)’: starchcat.c:4541:62: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 4541 | STARCHCAT_freeChromosomeSummary( &((*chrSums)->summary), static_cast( (*chrSums)->numChromosomes )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_mergeChromosomeStreams(const ChromosomeSummaries*, CompressionType, const char*, size_t*, Boolean, Boolean, Bed::LineCountType)’: starchcat.c:5908:61: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5908 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:5935:64: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5935 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:5958:64: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5958 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:5996:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 5996 | static_cast( outputType ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:6031:38: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6031 | static_cast( hFlag ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:6059:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6059 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:6061:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6061 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_fillExtractionBufferFromBzip2Stream(Boolean*, char*, char*, size_t*, BZFILE**, size_t*, char*, size_t*, TransformState*)’: starchcat.c:6726:55: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 6726 | UNSTARCH_reverseTransformCoordinates( static_cast( *t_lineIdxPtr ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_fillExtractionBufferFromGzipStream(Boolean*, FILE**, char*, char*, size_t*, z_stream*, size_t*, char**, size_t*, TransformState*)’: starchcat.c:7067:59: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 7067 | UNSTARCH_reverseTransformCoordinates( static_cast( *t_lineIdxPtr ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_transformCompressionBuffer(const char*, char*, TransformState*)’: starchcat.c:7435:25: warning: the address of ‘starch::transformState::r_chromosome’ will never be NULL [-Waddress] 7435 | if ((!retransState->r_chromosome) || (strlen(retransState->r_chromosome) == 0)) | ~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from starchcat.c:50: starchcat.h:107:30: note: ‘starch::transformState::r_chromosome’ declared here 107 | char r_chromosome[TOKEN_CHR_MAX_LENGTH]; | ^~~~~~~~~~~~ starchcat.c: In function ‘int starch::STARCHCAT2_mergeInputRecordsToOutput(const char*, Metadata**, const char*, CompressionType, const ChromosomeSummary*, size_t*)’: starchcat.c:3123:16: warning: ‘char* strncpy(char*, const char*, size_t)’ specified bound depends on the length of the source argument [-Wstringop-truncation] 3123 | strncpy(transformStates[inRecIdx]->t_currentChromosome, inChr, strlen(inChr) + 1); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchcat.c:3123:78: note: length computed here 3123 | strncpy(transformStates[inRecIdx]->t_currentChromosome, inChr, strlen(inChr) + 1); | ~~~~~~^~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s objects/starchcat.o -o ../bin/starchcat-typical ../lib/libstarch.a -ljansson -lz -lbz2 mkdir -p ../bin cp starchcluster_gnuParallel.tcsh ../bin/starchcluster_gnuParallel-typical mkdir -p ../bin cp starchcluster_sge.tcsh ../bin/starchcluster_sge-typical mkdir -p ../bin cp starchcluster_slurm.tcsh ../bin/starchcluster_slurm-typical mkdir -p ../bin cp starch-diff.py ../bin/starch-diff-typical mkdir -p ../bin i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s -c starchstrip.c -o objects/starchstrip.o -iquote../../../../interfaces/general-headers -iquote../../../.. starchstrip.c: In function ‘void starch::STARCHSTRIP_write_updated_metadata(FILE*)’: starchstrip.c:124:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 124 | static_cast( STARCH2_MD_FOOTER_BASE64_ENCODED_SHA1_LENGTH ), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ starchstrip.c:126:13: warning: type qualifiers ignored on cast result type [-Wignored-qualifiers] 126 | static_cast( STARCH2_MD_FOOTER_SHA1_LENGTH )); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -D__STDC_CONSTANT_MACROS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE=1 -DUSE_ZLIB -DUSE_BZLIB -O2 -Wformat -Wall -Wextra -Wswitch-enum -std=c++11 -s objects/starchstrip.o -o ../bin/starchstrip-typical ../lib/libstarch.a -ljansson -lz -lbz2 rm -rf objects make[4]: Leaving directory '/<>/applications/bed/starch/src' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a make -j1 install DESTDIR=/<>/bedops-2.4.42\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>' mkdir -p bin cp applications/bed/conversion/src/wrappers/bam2bed applications/bed/conversion/src/wrappers/bam2bed_gnuParallel applications/bed/conversion/src/wrappers/bam2bed_sge applications/bed/conversion/src/wrappers/bam2bed_slurm applications/bed/conversion/src/wrappers/bam2starch applications/bed/conversion/src/wrappers/bam2starch_gnuParallel applications/bed/conversion/src/wrappers/bam2starch_sge applications/bed/conversion/src/wrappers/bam2starch_slurm applications/bed/conversion/src/wrappers/gff2bed applications/bed/conversion/src/wrappers/gff2starch applications/bed/conversion/src/wrappers/gtf2bed applications/bed/conversion/src/wrappers/gtf2starch applications/bed/conversion/src/wrappers/gvf2bed applications/bed/conversion/src/wrappers/gvf2starch applications/bed/conversion/src/wrappers/psl2bed applications/bed/conversion/src/wrappers/psl2starch applications/bed/conversion/src/wrappers/rmsk2bed applications/bed/conversion/src/wrappers/rmsk2starch applications/bed/conversion/src/wrappers/sam2bed applications/bed/conversion/src/wrappers/sam2starch applications/bed/conversion/src/wrappers/vcf2bed applications/bed/conversion/src/wrappers/vcf2starch applications/bed/conversion/src/wrappers/wig2bed applications/bed/conversion/src/wrappers/wig2starch bin cp applications/bed/starch/bin/starchcluster_sge-typical bin/starchcluster_sge cp applications/bed/starch/bin/starchcluster_gnuParallel-typical bin/starchcluster_gnuParallel cp applications/bed/starch/bin/starchcluster_slurm-typical bin/starchcluster_slurm cp applications/bed/starch/bin/starch-diff-typical bin/starch-diff cp applications/bed/sort-bed/bin/sort-bed-typical bin/sort-bed cp applications/bed/sort-bed/bin/update-sort-bed-slurm-typical bin/update-sort-bed-slurm cp applications/bed/sort-bed/bin/update-sort-bed-starch-slurm-typical bin/update-sort-bed-starch-slurm cp applications/bed/sort-bed/bin/update-sort-bed-migrate-candidates-typical bin/update-sort-bed-migrate-candidates cp applications/bed/bedops/bin/bedops-typical bin/bedops cp applications/bed/closestfeats/bin/closest-features-typical bin/closest-features cp applications/bed/bedmap/bin/bedmap-typical bin/bedmap cp applications/bed/bedextract/bin/bedextract-typical bin/bedextract cp applications/bed/starch/bin/starch-typical bin/starch cp applications/bed/starch/bin/unstarch-typical bin/unstarch cp applications/bed/starch/bin/starchcat-typical bin/starchcat cp applications/bed/starch/bin/starchstrip-typical bin/starchstrip cp applications/bed/conversion/bin/convert2bed-typical bin/convert2bed make[1]: Leaving directory '/<>' debian/rules override_dh_install-arch make[1]: Entering directory '/<>' dh_install -a mv bin/starch bin/bedops-starch mkdir -p debian/bedops/usr/bin/ cp bin/* debian/bedops/usr/bin/ make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installman-arch make[1]: Entering directory '/<>' cd bin && for f in * ; do help2man --no-discard-stderr --version-string="2.4.42+dfsg" -o $f.1 ./$f; done help2man: can't get `--help' info from ./starch-diff help2man: can't get `--help' info from ./update-sort-bed-migrate-candidates help2man: can't get `--help' info from ./update-sort-bed-slurm help2man: can't get `--help' info from ./update-sort-bed-starch-slurm dh_installman -a make[1]: Leaving directory '/<>' dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a debian/rules override_dh_dwz make[1]: Entering directory '/<>' # Work around: dwz: Too few files for multifile optimization echo "Do not run dh_dwz" Do not run dh_dwz make[1]: Leaving directory '/<>' dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'bedops' in '../bedops_2.4.42+dfsg-1_i386.deb'. dpkg-deb: building package 'bedops-dbgsym' in '../bedops-dbgsym_2.4.42+dfsg-1_i386.deb'. dpkg-genbuildinfo --build=any -O../bedops_2.4.42+dfsg-1_i386.buildinfo dpkg-genchanges --build=any -O../bedops_2.4.42+dfsg-1_i386.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 2025-08-22T18:51:32Z +------------------------------------------------------------------------------+ | Finished Timed Build Commands | +------------------------------------------------------------------------------+ rm -Rf /<>/ ----------------------------------------------- I: Finished running 'rm -Rf /<>/'. Finished processing commands. -------------------------------------------------------------------------------- Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ bedops_2.4.42+dfsg-1_i386.changes: ---------------------------------- Format: 1.8 Date: Mon, 18 Aug 2025 00:04:42 +0200 Source: bedops Binary: bedops bedops-dbgsym Built-For-Profiles: cross nocheck Architecture: i386 Version: 2.4.42+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Steffen Moeller Description: bedops - high-performance genomic feature operations Changes: bedops (2.4.42+dfsg-1) unstable; urgency=medium . * Team upload. * New upstream version * Standards-Version: 4.7.2 (routine-update) Checksums-Sha1: 1ffea73dab72277e6880056e8b2ff102ccd8a4c7 73868 bedops-dbgsym_2.4.42+dfsg-1_i386.deb 00f56dd6ae5db798ff62fc24c8dc7a10dbfde50a 5041 bedops_2.4.42+dfsg-1_i386.buildinfo 795c0ca5669f06309898bdb80fcf61338b3a3539 1550808 bedops_2.4.42+dfsg-1_i386.deb Checksums-Sha256: c3ad64f6064a9e0d42ea0e5d3c5d1bb0229c1b2307e59df0e68a0fec36382f67 73868 bedops-dbgsym_2.4.42+dfsg-1_i386.deb 1304c85c409b6ded3be75fd74d043a06ba310711b400645c20a6d251f27a3432 5041 bedops_2.4.42+dfsg-1_i386.buildinfo d66fba45daa2079d594d18c4eebc1c45217c4d03d25e29f0606c69d5d4f07da8 1550808 bedops_2.4.42+dfsg-1_i386.deb Files: 7bc808c0a7445ac5a1647e717e1402cb 73868 debug optional bedops-dbgsym_2.4.42+dfsg-1_i386.deb 15dd7cf84dc8d90bf42a64515205f14a 5041 science optional bedops_2.4.42+dfsg-1_i386.buildinfo ee19af26752e9bf8beaaeafd8d23419d 1550808 science optional bedops_2.4.42+dfsg-1_i386.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: bedops Binary: bedops bedops-dbgsym Architecture: i386 Version: 2.4.42+dfsg-1 Checksums-Md5: 7bc808c0a7445ac5a1647e717e1402cb 73868 bedops-dbgsym_2.4.42+dfsg-1_i386.deb ee19af26752e9bf8beaaeafd8d23419d 1550808 bedops_2.4.42+dfsg-1_i386.deb Checksums-Sha1: 1ffea73dab72277e6880056e8b2ff102ccd8a4c7 73868 bedops-dbgsym_2.4.42+dfsg-1_i386.deb 795c0ca5669f06309898bdb80fcf61338b3a3539 1550808 bedops_2.4.42+dfsg-1_i386.deb Checksums-Sha256: c3ad64f6064a9e0d42ea0e5d3c5d1bb0229c1b2307e59df0e68a0fec36382f67 73868 bedops-dbgsym_2.4.42+dfsg-1_i386.deb d66fba45daa2079d594d18c4eebc1c45217c4d03d25e29f0606c69d5d4f07da8 1550808 bedops_2.4.42+dfsg-1_i386.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Fri, 22 Aug 2025 18:51:31 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.72-3.1), automake (= 1:1.17-4), autopoint (= 0.23.1-2), autotools-dev (= 20240727.1), base-files (= 14), base-passwd (= 3.6.7), bash (= 5.2.37-2+b5), binutils (= 2.45-4), binutils-aarch64-linux-gnu (= 2.45-4), binutils-common (= 2.45-4), bsdextrautils (= 2.41.1-1), bsdutils (= 1:2.41.1-1), build-essential (= 12.12), bzip2 (= 1.0.8-6), coreutils (= 9.7-3), cpp (= 4:14.2.0-1), cpp-14 (= 14.3.0-5), cpp-14-aarch64-linux-gnu (= 14.3.0-5), cpp-aarch64-linux-gnu (= 4:14.2.0-1), dash (= 0.5.12-12), debconf (= 1.5.91), debhelper (= 13.25), debianutils (= 5.23.2), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.1-2), diffutils (= 1:3.10-4), dpkg (= 1.22.21), dpkg-dev (= 1.22.21), dwz (= 0.15-1+b1), file (= 1:5.46-5), findutils (= 4.10.0-3), g++ (= 4:14.2.0-1), g++-14 (= 14.3.0-5), g++-14-aarch64-linux-gnu (= 14.3.0-5), g++-aarch64-linux-gnu (= 4:14.2.0-1), gcc (= 4:14.2.0-1), gcc-14 (= 14.3.0-5), gcc-14-aarch64-linux-gnu (= 14.3.0-5), gcc-14-base (= 14.3.0-5), gcc-15-base (= 15.2.0-1), gcc-aarch64-linux-gnu (= 4:14.2.0-1), gettext (= 0.23.1-2+b1), gettext-base (= 0.23.1-2+b1), grep (= 3.11-4+b1), groff-base (= 1.23.0-9), gzip (= 1.13-1), help2man (= 1.49.3+b1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2+b1), libarchive-zip-perl (= 1.68-1), libasan8 (= 15.2.0-1), libatomic1 (= 15.2.0-1), libattr1 (= 1:2.5.2-3), libaudit-common (= 1:4.0.5-1), libaudit1 (= 1:4.0.5-1), libbinutils (= 2.45-4), libblkid1 (= 2.41.1-1), libbz2-1.0 (= 1.0.8-6), libbz2-dev (= 1.0.8-6), libc-bin (= 2.41-12), libc-dev-bin (= 2.41-12), libc6 (= 2.41-12), libc6-dev (= 2.41-12), libcap-ng0 (= 0.8.5-4+b1), libcap2 (= 1:2.75-10+b1), libcc1-0 (= 15.2.0-1), libcrypt-dev (= 1:4.4.38-1), libcrypt1 (= 1:4.4.38-1), libctf-nobfd0 (= 2.45-4), libctf0 (= 2.45-4), libdb5.3t64 (= 5.3.28+dfsg2-9), libdebconfclient0 (= 0.280), libdebhelper-perl (= 13.25), libdpkg-perl (= 1.22.21), libelf1t64 (= 0.192-4), libfile-stripnondeterminism-perl (= 1.14.1-2), libgcc-14-dev (= 14.3.0-5), libgcc-s1 (= 15.2.0-1), libgdbm-compat4t64 (= 1.24-2), libgdbm6t64 (= 1.24-2), libgmp10 (= 2:6.3.0+dfsg-3), libgomp1 (= 15.2.0-1), libgprofng0 (= 2.45-4), libhwasan0 (= 15.2.0-1), libisl23 (= 0.27-1), libitm1 (= 15.2.0-1), libjansson-dev (= 2.14-2+b3), libjansson4 (= 2.14-2+b3), liblastlog2-2 (= 2.41.1-1), liblocale-gettext-perl (= 1.07-7+b1), liblsan0 (= 15.2.0-1), liblzma5 (= 5.8.1-1), libmagic-mgc (= 1:5.46-5), libmagic1t64 (= 1:5.46-5), libmd0 (= 1.1.0-2+b1), libmount1 (= 2.41.1-1), libmpc3 (= 1.3.1-1+b3), libmpfr6 (= 4.2.2-1), libpam-modules (= 1.7.0-5), libpam-modules-bin (= 1.7.0-5), libpam-runtime (= 1.7.0-5), libpam0g (= 1.7.0-5), libpcre2-8-0 (= 10.45-1), libperl5.40 (= 5.40.1-6), libpipeline1 (= 1.5.8-1), libseccomp2 (= 2.6.0-2), libselinux1 (= 3.8.1-1), libsframe2 (= 2.45-4), libsmartcols1 (= 2.41.1-1), libsqlite3-0 (= 3.46.1-7), libssl3t64 (= 3.5.2-1), libstdc++-14-dev (= 14.3.0-5), libstdc++6 (= 15.2.0-1), libsystemd0 (= 258~rc3-1), libtinfo6 (= 6.5+20250216-2), libtool (= 2.5.4-4), libtsan2 (= 15.2.0-1), libubsan1 (= 15.2.0-1), libuchardet0 (= 0.0.8-1+b2), libudev1 (= 258~rc3-1), libunistring5 (= 1.3-2), libuuid1 (= 2.41.1-1), libxml2-16 (= 2.14.5+dfsg-0.1), libzstd1 (= 1.5.7+dfsg-1), linux-libc-dev (= 6.12.38-1), m4 (= 1.4.19-8), make (= 4.4.1-2), man-db (= 2.13.1-1), mawk (= 1.3.4.20250131-1), ncurses-base (= 6.5+20250216-2), ncurses-bin (= 6.5+20250216-2), openssl-provider-legacy (= 3.5.2-1), patch (= 2.8-2), perl (= 5.40.1-6), perl-base (= 5.40.1-6), perl-modules-5.40 (= 5.40.1-6), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.3-1+b1), sed (= 4.9-2+b1), sensible-utils (= 0.0.26), sysvinit-utils (= 3.14-4), tar (= 1.35+dfsg-3.1), tcsh (= 6.24.13-2+b1), util-linux (= 2.41.1-1), xz-utils (= 5.8.1-1), 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="1755468282" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ bedops-dbgsym_2.4.42+dfsg-1_i386.deb ------------------------------------ new Debian package, version 2.0. size 73868 bytes: control archive=540 bytes. 377 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: bedops-dbgsym Source: bedops Version: 2.4.42+dfsg-1 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Debian Med Packaging Team Installed-Size: 159 Depends: bedops (= 2.4.42+dfsg-1) Section: debug Priority: optional Description: debug symbols for bedops Build-Ids: 99d42a2a2c22383c00a6c19c022f770bb7fbc104 drwxr-xr-x root/root 0 2025-08-17 22:04 ./ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/lib/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/lib/debug/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/lib/debug/.build-id/99/ -rw-r--r-- root/root 152568 2025-08-17 22:04 ./usr/lib/debug/.build-id/99/d42a2a2c22383c00a6c19c022f770bb7fbc104.debug drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/doc/ lrwxrwxrwx root/root 0 2025-08-17 22:04 ./usr/share/doc/bedops-dbgsym -> bedops bedops_2.4.42+dfsg-1_i386.deb ----------------------------- new Debian package, version 2.0. size 1550808 bytes: control archive=6256 bytes. 733 bytes, 15 lines control 21842 bytes, 241 lines md5sums Package: bedops Version: 2.4.42+dfsg-1 Architecture: i386 Maintainer: Debian Med Packaging Team Installed-Size: 11053 Depends: libbz2-1.0, libc6 (>= 2.38), libgcc-s1 (>= 4.2), libjansson4 (>= 2.14), libstdc++6 (>= 13.1), zlib1g (>= 1:1.1.4), python3, tcsh Section: science Priority: optional Homepage: https://github.com/bedops/bedops Description: high-performance genomic feature operations BEDOPS is a suite of tools to address common questions raised in genomic studies, mostly with regard to overlap and proximity relationships between data sets. It aims to be scalable and flexible, facilitating the efficient and accurate analysis and management of large-scale genomic data. drwxr-xr-x root/root 0 2025-08-17 22:04 ./ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/bin/ -rwxr-xr-x root/root 4711 2025-08-17 22:04 ./usr/bin/bam2bed -rwxr-xr-x root/root 4501 2025-08-17 22:04 ./usr/bin/bam2bed_gnuParallel -rwxr-xr-x root/root 5022 2025-08-17 22:04 ./usr/bin/bam2bed_sge -rwxr-xr-x root/root 5021 2025-08-17 22:04 ./usr/bin/bam2bed_slurm -rwxr-xr-x root/root 5842 2025-08-17 22:04 ./usr/bin/bam2starch -rwxr-xr-x root/root 4507 2025-08-17 22:04 ./usr/bin/bam2starch_gnuParallel -rwxr-xr-x root/root 5076 2025-08-17 22:04 ./usr/bin/bam2starch_sge -rwxr-xr-x root/root 5014 2025-08-17 22:04 ./usr/bin/bam2starch_slurm -rwxr-xr-x root/root 247884 2025-08-17 22:04 ./usr/bin/bedextract -rwxr-xr-x root/root 8824984 2025-08-17 22:04 ./usr/bin/bedmap -rwxr-xr-x root/root 481408 2025-08-17 22:04 ./usr/bin/bedops -rwxr-xr-x root/root 112484 2025-08-17 22:04 ./usr/bin/bedops-starch -rwxr-xr-x root/root 272472 2025-08-17 22:04 ./usr/bin/closest-features -rwxr-xr-x root/root 145804 2025-08-17 22:04 ./usr/bin/convert2bed -rwxr-xr-x root/root 3773 2025-08-17 22:04 ./usr/bin/gff2bed -rwxr-xr-x root/root 4904 2025-08-17 22:04 ./usr/bin/gff2starch -rwxr-xr-x root/root 4061 2025-08-17 22:04 ./usr/bin/gtf2bed -rwxr-xr-x root/root 5195 2025-08-17 22:04 ./usr/bin/gtf2starch -rwxr-xr-x root/root 3773 2025-08-17 22:04 ./usr/bin/gvf2bed -rwxr-xr-x root/root 4904 2025-08-17 22:04 ./usr/bin/gvf2starch -rwxr-xr-x root/root 3976 2025-08-17 22:04 ./usr/bin/psl2bed -rwxr-xr-x root/root 5107 2025-08-17 22:04 ./usr/bin/psl2starch -rwxr-xr-x root/root 3776 2025-08-17 22:04 ./usr/bin/rmsk2bed -rwxr-xr-x root/root 4907 2025-08-17 22:04 ./usr/bin/rmsk2starch -rwxr-xr-x root/root 4711 2025-08-17 22:04 ./usr/bin/sam2bed -rwxr-xr-x root/root 5842 2025-08-17 22:04 ./usr/bin/sam2starch -rwxr-xr-x root/root 264284 2025-08-17 22:04 ./usr/bin/sort-bed -rwxr-xr-x root/root 10163 2025-08-17 22:04 ./usr/bin/starch-diff -rwxr-xr-x root/root 206708 2025-08-17 22:04 ./usr/bin/starchcat -rwxr-xr-x root/root 4299 2025-08-17 22:04 ./usr/bin/starchcluster_gnuParallel -rwxr-xr-x root/root 4810 2025-08-17 22:04 ./usr/bin/starchcluster_sge -rwxr-xr-x root/root 4716 2025-08-17 22:04 ./usr/bin/starchcluster_slurm -rwxr-xr-x root/root 116516 2025-08-17 22:04 ./usr/bin/starchstrip -rwxr-xr-x root/root 153284 2025-08-17 22:04 ./usr/bin/unstarch -rwxr-xr-x root/root 32686 2025-08-17 22:04 ./usr/bin/update-sort-bed-migrate-candidates -rwxr-xr-x root/root 20701 2025-08-17 22:04 ./usr/bin/update-sort-bed-slurm -rwxr-xr-x root/root 22682 2025-08-17 22:04 ./usr/bin/update-sort-bed-starch-slurm -rwxr-xr-x root/root 4675 2025-08-17 22:04 ./usr/bin/vcf2bed -rwxr-xr-x root/root 5806 2025-08-17 22:04 ./usr/bin/vcf2starch -rwxr-xr-x root/root 4598 2025-08-17 22:04 ./usr/bin/wig2bed -rwxr-xr-x root/root 5729 2025-08-17 22:04 ./usr/bin/wig2starch drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/doc/bedops/ -rw-r--r-- root/root 267 2025-08-17 22:03 ./usr/share/doc/bedops/README.Debian -rw-r--r-- root/root 1463 2025-08-17 22:04 ./usr/share/doc/bedops/changelog.Debian.gz -rw-r--r-- root/root 23272 2025-04-10 20:19 ./usr/share/doc/bedops/changelog.gz -rw-r--r-- root/root 1156 2025-08-17 22:04 ./usr/share/doc/bedops/copyright drwxr-xr-x root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/ -rw-r--r-- root/root 954 2025-04-10 20:19 ./usr/share/doc/bedops/tests/Makefile drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/doc/bedops/tests/bedops/ -rw-r--r-- root/root 2166 2025-08-17 22:04 ./usr/share/doc/bedops/tests/bedops/Makefile.gz drwxr-xr-x root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/ -rw-r--r-- root/root 197 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.chop.001.expected -rw-r--r-- root/root 44 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.chop.001a.test -rw-r--r-- root/root 53 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.chop.001b.test -rw-r--r-- root/root 24 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.chrom.001.expected -rw-r--r-- root/root 26 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.complement.001.expected -rw-r--r-- root/root 31 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.difference.001.expected -rw-r--r-- root/root 23 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.ec.001a.test -rw-r--r-- root/root 69 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.element-of.001.expected -rw-r--r-- root/root 91 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.intersection.001.expected -rw-r--r-- root/root 52 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.intersection.001a.test -rw-r--r-- root/root 104 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.intersection.001b.test -rw-r--r-- root/root 37 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.merge.001.expected -rw-r--r-- root/root 111 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.merge.001.test -rw-r--r-- root/root 368 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.named-pipe.001.expected -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.not-element-of.001.expected -rw-r--r-- root/root 148 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001.expected -rw-r--r-- root/root 39 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001a.test -rw-r--r-- root/root 56 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001b.test -rw-r--r-- root/root 40 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.partition.001c.test -rw-r--r-- root/root 257 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.stdin.001.expected -rw-r--r-- root/root 130 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.symdiff.001.expected -rw-r--r-- root/root 134 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.union.001.expected -rw-r--r-- root/root 126 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/001.union.001.test -rw-r--r-- root/root 171 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.chop.002.expected -rw-r--r-- root/root 20 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.chrom.002.expected -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.complement.002.expected -rw-r--r-- root/root 2172 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.difference.002.expected -rw-r--r-- root/root 3033 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.difference.002a.test -rw-r--r-- root/root 2941 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.difference.002b.test -rw-r--r-- root/root 18 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.element-of.002.expected -rw-r--r-- root/root 13 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.intersection.002.expected -rw-r--r-- root/root 26 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.intersection.002.test -rw-r--r-- root/root 11 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.merge.002.expected -rw-r--r-- root/root 11 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.not-element-of.002.expected -rw-r--r-- root/root 376 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002.expected -rw-r--r-- root/root 48 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002a.test -rw-r--r-- root/root 49 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002b.test -rw-r--r-- root/root 101 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002c.test -rw-r--r-- root/root 39 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002d.test -rw-r--r-- root/root 131 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.partition.002e.test -rw-r--r-- root/root 118 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.symdiff.002.expected -rw-r--r-- root/root 56 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/002.union.002.expected -rw-r--r-- root/root 368 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.chop.003.expected -rw-r--r-- root/root 24 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.chrom.003.expected -rw-r--r-- root/root 61 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.complement.003.expected -rw-r--r-- root/root 3794 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.difference.003.expected -rw-r--r-- root/root 42 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.element-of.003.expected -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.intersection.003.expected -rw-r--r-- root/root 35 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.merge.003.expected -rw-r--r-- root/root 46 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.merge.003.test -rw-r--r-- root/root 21 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.not-element-of.003.expected -rw-r--r-- root/root 63 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.not-element-of.003a.test -rw-r--r-- root/root 42 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.not-element-of.003b.test -rw-r--r-- root/root 153 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.partition.003.expected -rw-r--r-- root/root 398 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.partition.003.test -rw-r--r-- root/root 22 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003.expected -rw-r--r-- root/root 18 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003a.test -rw-r--r-- root/root 29 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003b.test -rw-r--r-- root/root 9 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003c.test -rw-r--r-- root/root 11 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.symdiff.003d.test -rw-r--r-- root/root 355 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.union.003.expected -rw-r--r-- root/root 360 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/003.union.003.test -rw-r--r-- root/root 257 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.chop.004.expected -rw-r--r-- root/root 24 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.chrom.004.expected -rw-r--r-- root/root 111 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004.expected -rw-r--r-- root/root 46 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004a.test -rw-r--r-- root/root 132 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004b.test -rw-r--r-- root/root 94 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.complement.004c.test -rw-r--r-- root/root 30 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.difference.004.expected -rw-r--r-- root/root 30 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.difference.004a.test -rw-r--r-- root/root 31 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.difference.004b.test -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.element-of.004.expected -rw-r--r-- root/root 92 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.element-of.004a.test -rw-r--r-- root/root 23 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.element-of.004b.test -rw-r--r-- root/root 49 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004.expected -rw-r--r-- root/root 103 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004a.test -rw-r--r-- root/root 85 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004b.test -rw-r--r-- root/root 47 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.intersection.004c.test -rw-r--r-- root/root 72 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.merge.004.expected -rw-r--r-- root/root 117 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.partition.004.expected -rw-r--r-- root/root 117 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.partition.004.test -rw-r--r-- root/root 52 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.symdiff.004.expected -rw-r--r-- root/root 22 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.union.004.expected -rw-r--r-- root/root 32 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/004.union.004.test -rw-r--r-- root/root 385 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.chop.005.expected -rw-r--r-- root/root 87 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.chop.005.test -rw-r--r-- root/root 20 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.complement.005.expected -rw-r--r-- root/root 40 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.complement.005.test -rw-r--r-- root/root 31 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.difference.005.expected -rw-r--r-- root/root 93 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.merge.005.expected -rw-r--r-- root/root 43 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.merge.005.test -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.symdiff.005.expected -rw-r--r-- root/root 11 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/005.union.005.expected -rw-r--r-- root/root 35 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/006.complement.006.expected -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/006.difference.006.expected -rw-r--r-- root/root 41 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006.expected -rw-r--r-- root/root 37 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006a.test -rw-r--r-- root/root 35 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006b.test -rw-r--r-- root/root 31 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/006.merge.006c.test -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/006.union.006.expected -rw-r--r-- root/root 9 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/007.complement.007.expected -rw-r--r-- root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/007.difference.007.expected -rw-r--r-- root/root 55 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/007.merge.007.expected -rw-r--r-- root/root 56 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/007.merge.007a.test -rw-r--r-- root/root 69 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/007.merge.007b.test -rw-r--r-- root/root 33 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/007.union.007.expected -rw-r--r-- root/root 79 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/008.complement.008.expected -rw-r--r-- root/root 197 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/008.merge.008.expected -rw-r--r-- root/root 33 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/008.union.008.expected -rw-r--r-- root/root 175 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/009.complement.009.expected -rw-r--r-- root/root 52 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/009.merge.009.expected -rw-r--r-- root/root 33 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/009.union.009.expected -rw-r--r-- root/root 43 2025-04-10 20:19 ./usr/share/doc/bedops/tests/bedops/data/009.union.009.test drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/doc/bedops/tests/conversion/ -rw-r--r-- root/root 1159 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/Makefile.gz drwxr-xr-x root/root 0 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/ -rw-r--r-- root/root 398 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/001.wig2bed_with_chr_prefix_no_header.001.expected -rw-r--r-- root/root 352 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/001.wig2bed_with_chr_prefix_no_header.001.wig -rw-r--r-- root/root 368 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/002.wig2bed_no_chr_prefix_no_header.001.expected -rw-r--r-- root/root 322 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/002.wig2bed_no_chr_prefix_no_header.001.wig -rw-r--r-- root/root 102 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.expected -rw-r--r-- root/root 52 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/003.wig2bed_fixedStep_with_chr_prefix_no_header.001.wig -rw-r--r-- root/root 102 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/003.wig2bed_fixedStep_with_chr_prefix_no_header.002.expected -rw-r--r-- root/root 60 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/003.wig2bed_fixedStep_with_chr_prefix_no_header.002.wig -rw-r--r-- root/root 93 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.expected -rw-r--r-- root/root 49 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/004.wig2bed_fixedStep_no_chr_prefix_no_header.001.wig -rw-r--r-- root/root 93 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/004.wig2bed_fixedStep_no_chr_prefix_no_header.002.expected -rw-r--r-- root/root 56 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/004.wig2bed_fixedStep_no_chr_prefix_no_header.002.wig -rw-r--r-- root/root 170 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/005.wig2bed_variableStep_with_chr_prefix_no_header.001.expected -rw-r--r-- root/root 85 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/005.wig2bed_variableStep_with_chr_prefix_no_header.001.wig -rw-r--r-- root/root 34 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/005.wig2bed_variableStep_with_chr_prefix_no_header.002.expected -rw-r--r-- root/root 43 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/005.wig2bed_variableStep_with_chr_prefix_no_header.002.wig -rw-r--r-- root/root 155 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/006.wig2bed_variableStep_no_chr_prefix_no_header.001.expected -rw-r--r-- root/root 82 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/006.wig2bed_variableStep_no_chr_prefix_no_header.001.wig -rw-r--r-- root/root 31 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/006.wig2bed_variableStep_no_chr_prefix_no_header.002.expected -rw-r--r-- root/root 40 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/006.wig2bed_variableStep_no_chr_prefix_no_header.002.wig -rw-r--r-- root/root 538 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.expected -rw-r--r-- root/root 454 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/007.wig2bed_multipleTracks_with_chr_prefix_with_header.001.wig -rw-r--r-- root/root 583 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/007.wig2bed_multipleTracks_with_chr_prefix_with_header.002.expected -rw-r--r-- root/root 700 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/007.wig2bed_multipleTracks_with_chr_prefix_with_header.003.expected -rw-r--r-- root/root 763 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/007.wig2bed_multipleTracks_with_chr_prefix_with_header.004.expected -rw-r--r-- root/root 493 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.expected -rw-r--r-- root/root 421 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/008.wig2bed_multipleTracks_no_chr_prefix_with_header.001.wig -rw-r--r-- root/root 538 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/008.wig2bed_multipleTracks_no_chr_prefix_with_header.002.expected -rw-r--r-- root/root 652 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/008.wig2bed_multipleTracks_no_chr_prefix_with_header.003.expected -rw-r--r-- root/root 715 2025-04-10 20:19 ./usr/share/doc/bedops/tests/conversion/data/008.wig2bed_multipleTracks_no_chr_prefix_with_header.004.expected drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/doc/bedops/tests/starch/ -rw-r--r-- root/root 1078 2025-08-17 22:04 ./usr/share/doc/bedops/tests/starch/Makefile.gz drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/doc/bedops/tests/starch/data/ -rw-r--r-- root/root 1935 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/001.starch_api.bedmap.001.expected -rw-r--r-- root/root 2813 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/001.starch_api.bedmap.001.test.gz -rw-r--r-- root/root 772 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/001.starchcat.disjoint_chrs.chr1.001.test -rw-r--r-- root/root 1166 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/001.starchcat.disjoint_chrs.chr1andChr2.001.expected -rw-r--r-- root/root 772 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/001.starchcat.disjoint_chrs.chr2.001.test -rw-r--r-- root/root 764 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/001.unstarch.signature.001.expected -rw-r--r-- root/root 2851 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/001.unstarch.signature.001.test.gz -rw-r--r-- root/root 218 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/002.unstarch.signature.001.expected -rw-r--r-- root/root 2254 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/002.unstarch.signature.001.test.gz -rw-r--r-- root/root 109 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/README -rw-r--r-- root/root 426 2025-04-10 20:19 ./usr/share/doc/bedops/tests/starch/data/hg38.bed -rw-r--r-- root/root 1516 2025-08-17 22:04 ./usr/share/doc/bedops/tests/starch/generate_random_intervals.sh drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/man/ drwxr-xr-x root/root 0 2025-08-17 22:04 ./usr/share/man/man1/ -rw-r--r-- root/root 348 2025-08-17 22:04 ./usr/share/man/man1/bam2bed.1.gz -rw-r--r-- root/root 650 2025-08-17 22:04 ./usr/share/man/man1/bam2bed_gnuParallel.1.gz -rw-r--r-- root/root 636 2025-08-17 22:04 ./usr/share/man/man1/bam2bed_sge.1.gz -rw-r--r-- root/root 641 2025-08-17 22:04 ./usr/share/man/man1/bam2bed_slurm.1.gz -rw-r--r-- root/root 356 2025-08-17 22:04 ./usr/share/man/man1/bam2starch.1.gz -rw-r--r-- root/root 647 2025-08-17 22:04 ./usr/share/man/man1/bam2starch_gnuParallel.1.gz -rw-r--r-- root/root 650 2025-08-17 22:04 ./usr/share/man/man1/bam2starch_sge.1.gz -rw-r--r-- root/root 652 2025-08-17 22:04 ./usr/share/man/man1/bam2starch_slurm.1.gz -rw-r--r-- root/root 445 2025-08-17 22:04 ./usr/share/man/man1/bedextract.1.gz -rw-r--r-- root/root 348 2025-08-17 22:04 ./usr/share/man/man1/bedmap.1.gz -rw-r--r-- root/root 372 2025-08-17 22:04 ./usr/share/man/man1/bedops-starch.1.gz -rw-r--r-- root/root 347 2025-08-17 22:04 ./usr/share/man/man1/bedops.1.gz -rw-r--r-- root/root 368 2025-08-17 22:04 ./usr/share/man/man1/closest-features.1.gz -rw-r--r-- root/root 357 2025-08-17 22:04 ./usr/share/man/man1/convert2bed.1.gz -rw-r--r-- root/root 348 2025-08-17 22:04 ./usr/share/man/man1/gff2bed.1.gz -rw-r--r-- root/root 355 2025-08-17 22:04 ./usr/share/man/man1/gff2starch.1.gz -rw-r--r-- root/root 348 2025-08-17 22:04 ./usr/share/man/man1/gtf2bed.1.gz -rw-r--r-- root/root 355 2025-08-17 22:04 ./usr/share/man/man1/gtf2starch.1.gz -rw-r--r-- root/root 349 2025-08-17 22:04 ./usr/share/man/man1/gvf2bed.1.gz -rw-r--r-- root/root 356 2025-08-17 22:04 ./usr/share/man/man1/gvf2starch.1.gz -rw-r--r-- root/root 347 2025-08-17 22:04 ./usr/share/man/man1/psl2bed.1.gz -rw-r--r-- root/root 355 2025-08-17 22:04 ./usr/share/man/man1/psl2starch.1.gz -rw-r--r-- root/root 350 2025-08-17 22:04 ./usr/share/man/man1/rmsk2bed.1.gz -rw-r--r-- root/root 357 2025-08-17 22:04 ./usr/share/man/man1/rmsk2starch.1.gz -rw-r--r-- root/root 347 2025-08-17 22:04 ./usr/share/man/man1/sam2bed.1.gz -rw-r--r-- root/root 356 2025-08-17 22:04 ./usr/share/man/man1/sam2starch.1.gz -rw-r--r-- root/root 353 2025-08-17 22:04 ./usr/share/man/man1/sort-bed.1.gz -rw-r--r-- root/root 353 2025-08-17 22:04 ./usr/share/man/man1/starchcat.1.gz -rw-r--r-- root/root 659 2025-08-17 22:04 ./usr/share/man/man1/starchcluster_gnuParallel.1.gz -rw-r--r-- root/root 641 2025-08-17 22:04 ./usr/share/man/man1/starchcluster_sge.1.gz -rw-r--r-- root/root 644 2025-08-17 22:04 ./usr/share/man/man1/starchcluster_slurm.1.gz -rw-r--r-- root/root 355 2025-08-17 22:04 ./usr/share/man/man1/starchstrip.1.gz -rw-r--r-- root/root 350 2025-08-17 22:04 ./usr/share/man/man1/unstarch.1.gz -rw-r--r-- root/root 348 2025-08-17 22:04 ./usr/share/man/man1/vcf2bed.1.gz -rw-r--r-- root/root 356 2025-08-17 22:04 ./usr/share/man/man1/vcf2starch.1.gz -rw-r--r-- root/root 349 2025-08-17 22:04 ./usr/share/man/man1/wig2bed.1.gz -rw-r--r-- root/root 356 2025-08-17 22:04 ./usr/share/man/man1/wig2starch.1.gz lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:arm64 Filtered Build-Depends: lintian:arm64 dpkg-deb: warning: root directory /<>/sbuild-build-depends-lintian-dummy has unusual owner or group 998:999 dpkg-deb: hint: you might need to pass --root-owner-group, see for further details dpkg-deb: warning: ignoring 1 warning about the control file(s) 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 [1349 B] Get:5 copy:/<>/apt_archive ./ Packages [1426 B] Fetched 3390 B in 0s (113 kB/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 packages were automatically installed and are no longer required: binutils-gold binutils-gold-aarch64-linux-gnu Use 'apt autoremove' to remove them. 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 libcom-err2 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 libffi8 libfile-basedir-perl libfile-find-rule-perl libfile-listing-perl libfile-sharedir-perl libfont-ttf-perl libgcrypt20 libglib2.0-0t64 libgnutls30t64 libgpg-error0 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 libidn2-0 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 libksba8 libldap2 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 libncursesw6 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 libnpth0t64 libnumber-compare-perl libp11-kit0 libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libproc2-0 libpsl5t64 libreadline8t64 libregexp-wildcards-perl librole-tiny-perl librtmp1 libsasl2-2 libsasl2-modules-db libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl 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 libtasn1-6 libterm-readkey-perl libtext-charwidth-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-wrapi18n-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 procps readline-common shared-mime-info t1utils ucf unzip Suggested packages: apt-config-icons isoquery libxml-parser-perl rng-tools low-memory-monitor gnutls-bin 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 libgpg-error-l10n libhtml-format-perl libio-compress-brotli-perl krb5-locales libldap-common liblist-someutils-xs-perl libfreezethaw-perl libgpm2 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 psmisc linux-sysctl-defaults 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 libcom-err2 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 libffi8 libfile-basedir-perl libfile-find-rule-perl libfile-listing-perl libfile-sharedir-perl libfont-ttf-perl libgcrypt20 libglib2.0-0t64 libgnutls30t64 libgpg-error0 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 libidn2-0 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 libksba8 libldap2 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 libncursesw6 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 libnpth0t64 libnumber-compare-perl libp11-kit0 libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libproc2-0 libpsl5t64 libreadline8t64 libregexp-wildcards-perl librole-tiny-perl librtmp1 libsasl2-2 libsasl2-modules-db libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl 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 libtasn1-6 libterm-readkey-perl libtext-charwidth-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-wrapi18n-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 procps readline-common sbuild-build-depends-lintian-dummy:i386 shared-mime-info t1utils ucf unzip 0 upgraded, 174 newly installed, 0 to remove and 0 not upgraded. Need to get 22.0 MB of archives. After this operation, 92.7 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://mirror.einval.org/debian unstable/main arm64 netbase all 6.5 [12.4 kB] Get:3 http://mirror.einval.org/debian unstable/main arm64 libncursesw6 arm64 6.5+20250216-2 [124 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get:5 http://mirror.einval.org/debian unstable/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get:6 http://mirror.einval.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB] Get:7 http://mirror.einval.org/debian unstable/main arm64 openssl arm64 3.5.2-1 [1457 kB] Get:8 http://mirror.einval.org/debian unstable/main arm64 ca-certificates all 20250419 [162 kB] Get:9 http://mirror.einval.org/debian unstable/main arm64 libtext-charwidth-perl arm64 0.04-11+b4 [9652 B] Get:10 http://mirror.einval.org/debian unstable/main arm64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get:11 http://mirror.einval.org/debian unstable/main arm64 ucf all 3.0052 [43.3 kB] Get:12 http://mirror.einval.org/debian unstable/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get:13 http://mirror.einval.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.84.4-3 [1428 kB] Get:14 http://mirror.einval.org/debian unstable/main arm64 shared-mime-info arm64 2.4-5+b3 [755 kB] Get:15 http://mirror.einval.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get:16 http://mirror.einval.org/debian unstable/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get:17 http://mirror.einval.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get:18 http://mirror.einval.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get:19 http://mirror.einval.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.10-2 [1395 kB] Get:20 http://mirror.einval.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get:21 http://mirror.einval.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get:22 http://mirror.einval.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get:23 http://mirror.einval.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get:24 http://mirror.einval.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get:25 http://mirror.einval.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get:26 http://mirror.einval.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get:27 http://mirror.einval.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get:28 http://mirror.einval.org/debian unstable/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get:29 http://mirror.einval.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get:30 http://mirror.einval.org/debian unstable/main arm64 libnghttp3-9 arm64 1.8.0-1 [63.2 kB] Get:31 http://mirror.einval.org/debian unstable/main arm64 libngtcp2-16 arm64 1.11.0-1 [121 kB] Get:32 http://mirror.einval.org/debian unstable/main arm64 libngtcp2-crypto-gnutls8 arm64 1.11.0-1 [28.2 kB] Get:33 http://mirror.einval.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get:34 http://mirror.einval.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get:35 http://mirror.einval.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get:36 http://mirror.einval.org/debian unstable/main arm64 libcurl3t64-gnutls arm64 8.15.0-1 [355 kB] Get:37 http://mirror.einval.org/debian unstable/main arm64 libstemmer0d arm64 3.0.1-1 [126 kB] Get:38 http://mirror.einval.org/debian unstable/main arm64 libxmlb2 arm64 0.3.23-1 [59.4 kB] Get:39 http://mirror.einval.org/debian unstable/main arm64 libyaml-0-2 arm64 0.2.5-2 [49.2 kB] Get:40 http://mirror.einval.org/debian unstable/main arm64 libappstream5 arm64 1.0.6-1 [211 kB] Get:41 http://mirror.einval.org/debian unstable/main arm64 appstream arm64 1.0.6-1 [535 kB] Get:42 http://mirror.einval.org/debian unstable/main arm64 diffstat arm64 1.67-1 [32.6 kB] Get:43 http://mirror.einval.org/debian unstable/main arm64 libgpg-error0 arm64 1.55-2 [83.9 kB] Get:44 http://mirror.einval.org/debian unstable/main arm64 libassuan9 arm64 3.0.2-2 [59.1 kB] Get:45 http://mirror.einval.org/debian unstable/main arm64 libgcrypt20 arm64 1.11.2-2 [772 kB] Get:46 http://mirror.einval.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get:47 http://mirror.einval.org/debian unstable/main arm64 gpgconf arm64 2.4.8-3 [122 kB] Get:48 http://mirror.einval.org/debian unstable/main arm64 libksba8 arm64 1.6.7-2+b1 [125 kB] Get:49 http://mirror.einval.org/debian unstable/main arm64 libnpth0t64 arm64 1.8-3 [22.9 kB] Get:50 http://mirror.einval.org/debian unstable/main arm64 gpg arm64 2.4.8-3 [579 kB] Get:51 http://mirror.einval.org/debian unstable/main arm64 iso-codes all 4.18.0-1 [3125 kB] Get:52 http://mirror.einval.org/debian unstable/main arm64 libaliased-perl all 0.34-3 [13.5 kB] Get:53 http://mirror.einval.org/debian unstable/main arm64 libapt-pkg-perl arm64 0.1.42 [64.3 kB] Get:54 http://mirror.einval.org/debian unstable/main arm64 libb-hooks-op-check-perl arm64 0.22-3+b2 [10.6 kB] Get:55 http://mirror.einval.org/debian unstable/main arm64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get:56 http://mirror.einval.org/debian unstable/main arm64 libdevel-callchecker-perl arm64 0.009-2 [15.7 kB] Get:57 http://mirror.einval.org/debian unstable/main arm64 libparams-classify-perl arm64 0.015-2+b4 [22.3 kB] Get:58 http://mirror.einval.org/debian unstable/main arm64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get:59 http://mirror.einval.org/debian unstable/main arm64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get:60 http://mirror.einval.org/debian unstable/main arm64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get:61 http://mirror.einval.org/debian unstable/main arm64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get:62 http://mirror.einval.org/debian unstable/main arm64 libvariable-magic-perl arm64 0.64-1+b1 [43.9 kB] Get:63 http://mirror.einval.org/debian unstable/main arm64 libb-hooks-endofscope-perl all 0.28-2 [17.6 kB] Get:64 http://mirror.einval.org/debian unstable/main arm64 libberkeleydb-perl arm64 0.66-1 [115 kB] Get:65 http://mirror.einval.org/debian unstable/main arm64 libcapture-tiny-perl all 0.50-1 [24.6 kB] Get:66 http://mirror.einval.org/debian unstable/main arm64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get:67 http://mirror.einval.org/debian unstable/main arm64 liburi-perl all 5.30-1 [105 kB] Get:68 http://mirror.einval.org/debian unstable/main arm64 libhtml-parser-perl arm64 3.83-1+b2 [97.5 kB] Get:69 http://mirror.einval.org/debian unstable/main arm64 libcgi-pm-perl all 4.68-1 [217 kB] Get:70 http://mirror.einval.org/debian unstable/main arm64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get:71 http://mirror.einval.org/debian unstable/main arm64 libclass-inspector-perl all 1.36-3 [17.5 kB] Get:72 http://mirror.einval.org/debian unstable/main arm64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get:73 http://mirror.einval.org/debian unstable/main arm64 libclass-xsaccessor-perl arm64 1.19-4+b5 [34.9 kB] Get:74 http://mirror.einval.org/debian unstable/main arm64 libclone-perl arm64 0.47-1+b1 [13.7 kB] Get:75 http://mirror.einval.org/debian unstable/main arm64 libconfig-tiny-perl all 2.30-1 [18.9 kB] Get:76 http://mirror.einval.org/debian unstable/main arm64 libparams-util-perl arm64 1.102-3+b1 [23.7 kB] Get:77 http://mirror.einval.org/debian unstable/main arm64 libsub-install-perl all 0.929-1 [10.5 kB] Get:78 http://mirror.einval.org/debian unstable/main arm64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get:79 http://mirror.einval.org/debian unstable/main arm64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get:80 http://mirror.einval.org/debian unstable/main arm64 libconst-fast-perl all 0.014-2 [8792 B] Get:81 http://mirror.einval.org/debian unstable/main arm64 libcpanel-json-xs-perl arm64 4.39-1 [128 kB] Get:82 http://mirror.einval.org/debian unstable/main arm64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get:83 http://mirror.einval.org/debian unstable/main arm64 libexception-class-perl all 1.45-1 [34.6 kB] Get:84 http://mirror.einval.org/debian unstable/main arm64 libiterator-perl all 0.03+ds1-2 [18.8 kB] Get:85 http://mirror.einval.org/debian unstable/main arm64 libiterator-util-perl all 0.02+ds1-2 [14.0 kB] Get:86 http://mirror.einval.org/debian unstable/main arm64 libdata-dpath-perl all 0.60-1 [41.8 kB] Get:87 http://mirror.einval.org/debian unstable/main arm64 libdata-messagepack-perl arm64 1.02-3 [31.1 kB] Get:88 http://mirror.einval.org/debian unstable/main arm64 libnet-domain-tld-perl all 1.75-4 [31.5 kB] Get:89 http://mirror.einval.org/debian unstable/main arm64 libdata-validate-domain-perl all 0.15-1 [11.9 kB] Get:90 http://mirror.einval.org/debian unstable/main arm64 libnet-ipv6addr-perl all 1.02-1 [21.7 kB] Get:91 http://mirror.einval.org/debian unstable/main arm64 libnet-netmask-perl all 2.0002-2 [28.6 kB] Get:92 http://mirror.einval.org/debian unstable/main arm64 libnetaddr-ip-perl arm64 4.079+dfsg-2+b5 [97.7 kB] Get:93 http://mirror.einval.org/debian unstable/main arm64 libdata-validate-ip-perl all 0.31-1 [20.6 kB] Get:94 http://mirror.einval.org/debian unstable/main arm64 libdata-validate-uri-perl all 0.07-3 [11.0 kB] Get:95 http://mirror.einval.org/debian unstable/main arm64 libdevel-size-perl arm64 0.85-1 [23.9 kB] Get:96 http://mirror.einval.org/debian unstable/main arm64 libemail-address-xs-perl arm64 1.05-1+b4 [28.2 kB] Get:97 http://mirror.einval.org/debian unstable/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB] Get:98 http://mirror.einval.org/debian unstable/main arm64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:99 http://mirror.einval.org/debian unstable/main arm64 libfile-basedir-perl all 0.09-2 [15.1 kB] Get:100 http://mirror.einval.org/debian unstable/main arm64 libnumber-compare-perl all 0.03-3 [6332 B] Get:101 http://mirror.einval.org/debian unstable/main arm64 libtext-glob-perl all 0.11-3 [7676 B] Get:102 http://mirror.einval.org/debian unstable/main arm64 libfile-find-rule-perl all 0.34-4 [25.6 kB] Get:103 http://mirror.einval.org/debian unstable/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:104 http://mirror.einval.org/debian unstable/main arm64 libhttp-date-perl all 6.06-1 [10.7 kB] Get:105 http://mirror.einval.org/debian unstable/main arm64 libfile-listing-perl all 6.16-1 [12.4 kB] Get:106 http://mirror.einval.org/debian unstable/main arm64 libfile-sharedir-perl all 1.118-3 [16.0 kB] Get:107 http://mirror.einval.org/debian unstable/main arm64 libio-string-perl all 1.08-4 [12.1 kB] Get:108 http://mirror.einval.org/debian unstable/main arm64 libfont-ttf-perl all 1.06-2 [318 kB] Get:109 http://mirror.einval.org/debian unstable/main arm64 libio-html-perl all 1.004-3 [16.2 kB] Get:110 http://mirror.einval.org/debian unstable/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get:111 http://mirror.einval.org/debian unstable/main arm64 libhttp-message-perl all 7.00-2 [79.8 kB] Get:112 http://mirror.einval.org/debian unstable/main arm64 libhtml-form-perl all 6.12-1 [32.3 kB] Get:113 http://mirror.einval.org/debian unstable/main arm64 libhtml-html5-entities-perl all 0.004-3 [21.0 kB] Get:114 http://mirror.einval.org/debian unstable/main arm64 libhtml-tree-perl all 5.07-3 [211 kB] Get:115 http://mirror.einval.org/debian unstable/main arm64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get:116 http://mirror.einval.org/debian unstable/main arm64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get:117 http://mirror.einval.org/debian unstable/main arm64 perl-openssl-defaults arm64 7+b2 [6712 B] Get:118 http://mirror.einval.org/debian unstable/main arm64 libnet-ssleay-perl arm64 1.94-3 [323 kB] Get:119 http://mirror.einval.org/debian unstable/main arm64 libio-socket-ssl-perl all 2.095-1 [226 kB] Get:120 http://mirror.einval.org/debian unstable/main arm64 libnet-http-perl all 6.23-1 [23.9 kB] Get:121 http://mirror.einval.org/debian unstable/main arm64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get:122 http://mirror.einval.org/debian unstable/main arm64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:123 http://mirror.einval.org/debian unstable/main arm64 libwww-perl all 6.78-1 [183 kB] Get:124 http://mirror.einval.org/debian unstable/main arm64 libhtml-tokeparser-simple-perl all 3.16-4 [39.1 kB] Get:125 http://mirror.einval.org/debian unstable/main arm64 libimport-into-perl all 1.002005-2 [11.3 kB] Get:126 http://mirror.einval.org/debian unstable/main arm64 libio-interactive-perl all 1.027-1 [11.8 kB] Get:127 http://mirror.einval.org/debian unstable/main arm64 libipc-run3-perl all 0.049-1 [31.5 kB] Get:128 http://mirror.einval.org/debian unstable/main arm64 libjson-maybexs-perl all 1.004008-1 [12.9 kB] Get:129 http://mirror.einval.org/debian unstable/main arm64 liblist-compare-perl all 0.55-2 [65.7 kB] Get:130 http://mirror.einval.org/debian unstable/main arm64 liblist-someutils-perl all 0.59-1 [37.1 kB] Get:131 http://mirror.einval.org/debian unstable/main arm64 liblist-utilsby-perl all 0.12-2 [15.5 kB] Get:132 http://mirror.einval.org/debian unstable/main arm64 liblz1 arm64 1.15-3 [37.8 kB] Get:133 http://mirror.einval.org/debian unstable/main arm64 liblzo2-2 arm64 2.10-3+b1 [49.6 kB] Get:134 http://mirror.einval.org/debian unstable/main arm64 libmarkdown2 arm64 2.2.7-2.1 [33.1 kB] Get:135 http://mirror.einval.org/debian unstable/main arm64 libmldbm-perl all 2.05-4 [16.8 kB] Get:136 http://mirror.einval.org/debian unstable/main arm64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:137 http://mirror.einval.org/debian unstable/main arm64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get:138 http://mirror.einval.org/debian unstable/main arm64 libmoo-perl all 2.005005-1 [58.0 kB] Get:139 http://mirror.einval.org/debian unstable/main arm64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:140 http://mirror.einval.org/debian unstable/main arm64 libmoox-aliases-perl all 0.001006-2 [7156 B] Get:141 http://mirror.einval.org/debian unstable/main arm64 libmouse-perl arm64 2.5.11-1+b1 [141 kB] Get:142 http://mirror.einval.org/debian unstable/main arm64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get:143 http://mirror.einval.org/debian unstable/main arm64 libsub-identify-perl arm64 0.14-3+b3 [11.2 kB] Get:144 http://mirror.einval.org/debian unstable/main arm64 libsub-name-perl arm64 0.28-1 [12.1 kB] Get:145 http://mirror.einval.org/debian unstable/main arm64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get:146 http://mirror.einval.org/debian unstable/main arm64 libpath-tiny-perl all 0.148-1 [56.7 kB] Get:147 http://mirror.einval.org/debian unstable/main arm64 libperlio-gzip-perl arm64 0.20-1+b4 [17.4 kB] Get:148 http://mirror.einval.org/debian unstable/main arm64 libperlio-utf8-strict-perl arm64 0.010-1+b3 [11.4 kB] Get:149 http://mirror.einval.org/debian unstable/main arm64 libproc-processtable-perl arm64 0.637-1 [41.5 kB] Get:150 http://mirror.einval.org/debian unstable/main arm64 libregexp-wildcards-perl all 1.05-3 [14.1 kB] Get:151 http://mirror.einval.org/debian unstable/main arm64 libsereal-decoder-perl arm64 5.004+ds-1+b3 [96.7 kB] Get:152 http://mirror.einval.org/debian unstable/main arm64 libsereal-encoder-perl arm64 5.004+ds-1+b3 [99.0 kB] Get:153 http://mirror.einval.org/debian unstable/main arm64 libsort-versions-perl all 1.62-3 [8928 B] Get:154 http://mirror.einval.org/debian unstable/main arm64 libxs-parse-keyword-perl arm64 0.48-2 [64.3 kB] Get:155 http://mirror.einval.org/debian unstable/main arm64 libsyntax-keyword-try-perl arm64 0.30-1+b1 [27.1 kB] Get:156 http://mirror.einval.org/debian unstable/main arm64 libterm-readkey-perl arm64 2.38-2+b4 [24.5 kB] Get:157 http://mirror.einval.org/debian unstable/main arm64 libtext-levenshteinxs-perl arm64 0.03-5+b4 [8772 B] Get:158 http://mirror.einval.org/debian unstable/main arm64 libtext-markdown-discount-perl arm64 0.18-1 [13.2 kB] Get:159 http://mirror.einval.org/debian unstable/main arm64 libtext-xslate-perl arm64 3.5.9-2+b1 [172 kB] Get:160 http://mirror.einval.org/debian unstable/main arm64 libtime-duration-perl all 1.21-2 [13.1 kB] Get:161 http://mirror.einval.org/debian unstable/main arm64 libtime-moment-perl arm64 0.44-2+b4 [72.0 kB] Get:162 http://mirror.einval.org/debian unstable/main arm64 libunicode-utf8-perl arm64 0.62-3 [19.9 kB] Get:163 http://mirror.einval.org/debian unstable/main arm64 libwww-mechanize-perl all 2.19-1 [114 kB] Get:164 http://mirror.einval.org/debian unstable/main arm64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get:165 http://mirror.einval.org/debian unstable/main arm64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get:166 http://mirror.einval.org/debian unstable/main arm64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get:167 http://mirror.einval.org/debian unstable/main arm64 libxml-libxml-perl arm64 2.0207+dfsg+really+2.0134-6 [299 kB] Get:168 http://mirror.einval.org/debian unstable/main arm64 libyaml-libyaml-perl arm64 0.903.0+ds-1 [33.7 kB] Get:169 http://mirror.einval.org/debian unstable/main arm64 plzip arm64 1.12-3 [60.0 kB] Get:170 http://mirror.einval.org/debian unstable/main arm64 lzop arm64 1.04-2+b1 [82.3 kB] Get:171 http://mirror.einval.org/debian unstable/main arm64 patchutils arm64 0.4.2-1+b1 [71.3 kB] Get:172 http://mirror.einval.org/debian unstable/main arm64 t1utils arm64 1.41-4+b1 [57.6 kB] Get:173 http://mirror.einval.org/debian unstable/main arm64 unzip arm64 6.0-29 [163 kB] Get:174 http://mirror.einval.org/debian unstable/main arm64 lintian all 2.122.0 [1063 kB] Preconfiguring packages ... Fetched 22.0 MB in 0s (59.6 MB/s) Selecting previously unselected package netbase. (Reading database ... 18223 files and directories currently installed.) Preparing to unpack .../000-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package libncursesw6:arm64. Preparing to unpack .../001-libncursesw6_6.5+20250216-2_arm64.deb ... Unpacking libncursesw6:arm64 (6.5+20250216-2) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-9_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-9_arm64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package readline-common. Preparing to unpack .../004-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.5.2-1_arm64.deb ... Unpacking openssl (3.5.2-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libtext-charwidth-perl:arm64. Preparing to unpack .../007-libtext-charwidth-perl_0.04-11+b4_arm64.deb ... Unpacking libtext-charwidth-perl:arm64 (0.04-11+b4) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../008-libtext-wrapi18n-perl_0.06-10_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-10) ... Selecting previously unselected package ucf. Preparing to unpack .../009-ucf_3.0052_all.deb ... Moving old data out of the way Unpacking ucf (3.0052) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../010-libffi8_3.4.8-2_arm64.deb ... Unpacking libffi8:arm64 (3.4.8-2) ... Selecting previously unselected package libglib2.0-0t64:arm64. Preparing to unpack .../011-libglib2.0-0t64_2.84.4-3_arm64.deb ... Unpacking libglib2.0-0t64:arm64 (2.84.4-3) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../012-shared-mime-info_2.4-5+b3_arm64.deb ... Unpacking shared-mime-info (2.4-5+b3) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../013-libbrotli1_1.1.0-2+b7_arm64.deb ... Unpacking libbrotli1:arm64 (1.1.0-2+b7) ... Selecting previously unselected package libidn2-0:arm64. Preparing to unpack .../014-libidn2-0_2.3.8-4_arm64.deb ... Unpacking libidn2-0:arm64 (2.3.8-4) ... Selecting previously unselected package libp11-kit0:arm64. Preparing to unpack .../015-libp11-kit0_0.25.5-3_arm64.deb ... Unpacking libp11-kit0:arm64 (0.25.5-3) ... Selecting previously unselected package libtasn1-6:arm64. Preparing to unpack .../016-libtasn1-6_4.20.0-2_arm64.deb ... Unpacking libtasn1-6:arm64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:arm64. Preparing to unpack .../017-libgnutls30t64_3.8.10-2_arm64.deb ... Unpacking libgnutls30t64:arm64 (3.8.10-2) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../018-libkrb5support0_1.21.3-5_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-5) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../019-libcom-err2_1.47.2-3+b3_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-3+b3) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../020-libk5crypto3_1.21.3-5_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-5) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../021-libkeyutils1_1.6.3-6_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-6) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../022-libkrb5-3_1.21.3-5_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-5) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../023-libgssapi-krb5-2_1.21.3-5_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-5) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../024-libsasl2-modules-db_2.1.28+dfsg1-9_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../025-libsasl2-2_2.1.28+dfsg1-9_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.28+dfsg1-9) ... Selecting previously unselected package libldap2:arm64. Preparing to unpack .../026-libldap2_2.6.10+dfsg-1_arm64.deb ... Unpacking libldap2:arm64 (2.6.10+dfsg-1) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../027-libnghttp2-14_1.64.0-1.1+b1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.64.0-1.1+b1) ... Selecting previously unselected package libnghttp3-9:arm64. Preparing to unpack .../028-libnghttp3-9_1.8.0-1_arm64.deb ... Unpacking libnghttp3-9:arm64 (1.8.0-1) ... Selecting previously unselected package libngtcp2-16:arm64. Preparing to unpack .../029-libngtcp2-16_1.11.0-1_arm64.deb ... Unpacking libngtcp2-16:arm64 (1.11.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:arm64. Preparing to unpack .../030-libngtcp2-crypto-gnutls8_1.11.0-1_arm64.deb ... Unpacking libngtcp2-crypto-gnutls8:arm64 (1.11.0-1) ... Selecting previously unselected package libpsl5t64:arm64. Preparing to unpack .../031-libpsl5t64_0.21.2-1.1+b1_arm64.deb ... Unpacking libpsl5t64:arm64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../032-librtmp1_2.4+20151223.gitfa8646d.1-3_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-3) ... Selecting previously unselected package libssh2-1t64:arm64. Preparing to unpack .../033-libssh2-1t64_1.11.1-1_arm64.deb ... Unpacking libssh2-1t64:arm64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:arm64. Preparing to unpack .../034-libcurl3t64-gnutls_8.15.0-1_arm64.deb ... Unpacking libcurl3t64-gnutls:arm64 (8.15.0-1) ... Selecting previously unselected package libstemmer0d:arm64. Preparing to unpack .../035-libstemmer0d_3.0.1-1_arm64.deb ... Unpacking libstemmer0d:arm64 (3.0.1-1) ... Selecting previously unselected package libxmlb2:arm64. Preparing to unpack .../036-libxmlb2_0.3.23-1_arm64.deb ... Unpacking libxmlb2:arm64 (0.3.23-1) ... Selecting previously unselected package libyaml-0-2:arm64. Preparing to unpack .../037-libyaml-0-2_0.2.5-2_arm64.deb ... Unpacking libyaml-0-2:arm64 (0.2.5-2) ... Selecting previously unselected package libappstream5:arm64. Preparing to unpack .../038-libappstream5_1.0.6-1_arm64.deb ... Unpacking libappstream5:arm64 (1.0.6-1) ... Selecting previously unselected package appstream. Preparing to unpack .../039-appstream_1.0.6-1_arm64.deb ... Unpacking appstream (1.0.6-1) ... Selecting previously unselected package diffstat. Preparing to unpack .../040-diffstat_1.67-1_arm64.deb ... Unpacking diffstat (1.67-1) ... Selecting previously unselected package libgpg-error0:arm64. Preparing to unpack .../041-libgpg-error0_1.55-2_arm64.deb ... Unpacking libgpg-error0:arm64 (1.55-2) ... Selecting previously unselected package libassuan9:arm64. Preparing to unpack .../042-libassuan9_3.0.2-2_arm64.deb ... Unpacking libassuan9:arm64 (3.0.2-2) ... Selecting previously unselected package libgcrypt20:arm64. Preparing to unpack .../043-libgcrypt20_1.11.2-2_arm64.deb ... Unpacking libgcrypt20:arm64 (1.11.2-2) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../044-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package gpgconf. Preparing to unpack .../045-gpgconf_2.4.8-3_arm64.deb ... Unpacking gpgconf (2.4.8-3) ... Selecting previously unselected package libksba8:arm64. Preparing to unpack .../046-libksba8_1.6.7-2+b1_arm64.deb ... Unpacking libksba8:arm64 (1.6.7-2+b1) ... Selecting previously unselected package libnpth0t64:arm64. Preparing to unpack .../047-libnpth0t64_1.8-3_arm64.deb ... Unpacking libnpth0t64:arm64 (1.8-3) ... Selecting previously unselected package gpg. Preparing to unpack .../048-gpg_2.4.8-3_arm64.deb ... Unpacking gpg (2.4.8-3) ... Selecting previously unselected package iso-codes. Preparing to unpack .../049-iso-codes_4.18.0-1_all.deb ... Unpacking iso-codes (4.18.0-1) ... Selecting previously unselected package libaliased-perl. Preparing to unpack .../050-libaliased-perl_0.34-3_all.deb ... Unpacking libaliased-perl (0.34-3) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../051-libapt-pkg-perl_0.1.42_arm64.deb ... Unpacking libapt-pkg-perl (0.1.42) ... Selecting previously unselected package libb-hooks-op-check-perl:arm64. Preparing to unpack .../052-libb-hooks-op-check-perl_0.22-3+b2_arm64.deb ... Unpacking libb-hooks-op-check-perl:arm64 (0.22-3+b2) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../053-libdynaloader-functions-perl_0.004-2_all.deb ... Unpacking libdynaloader-functions-perl (0.004-2) ... Selecting previously unselected package libdevel-callchecker-perl:arm64. Preparing to unpack .../054-libdevel-callchecker-perl_0.009-2_arm64.deb ... Unpacking libdevel-callchecker-perl:arm64 (0.009-2) ... Selecting previously unselected package libparams-classify-perl:arm64. Preparing to unpack .../055-libparams-classify-perl_0.015-2+b4_arm64.deb ... Unpacking libparams-classify-perl:arm64 (0.015-2+b4) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../056-libmodule-runtime-perl_0.018-1_all.deb ... Unpacking libmodule-runtime-perl (0.018-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../057-libtry-tiny-perl_0.32-1_all.deb ... Unpacking libtry-tiny-perl (0.32-1) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../058-libmodule-implementation-perl_0.09-2_all.deb ... Unpacking libmodule-implementation-perl (0.09-2) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../059-libsub-exporter-progressive-perl_0.001013-3_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-3) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../060-libvariable-magic-perl_0.64-1+b1_arm64.deb ... Unpacking libvariable-magic-perl (0.64-1+b1) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../061-libb-hooks-endofscope-perl_0.28-2_all.deb ... Unpacking libb-hooks-endofscope-perl (0.28-2) ... Selecting previously unselected package libberkeleydb-perl:arm64. Preparing to unpack .../062-libberkeleydb-perl_0.66-1_arm64.deb ... Unpacking libberkeleydb-perl:arm64 (0.66-1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../063-libcapture-tiny-perl_0.50-1_all.deb ... Unpacking libcapture-tiny-perl (0.50-1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../064-libhtml-tagset-perl_3.24-1_all.deb ... Unpacking libhtml-tagset-perl (3.24-1) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../065-liburi-perl_5.30-1_all.deb ... Unpacking liburi-perl (5.30-1) ... Selecting previously unselected package libhtml-parser-perl:arm64. Preparing to unpack .../066-libhtml-parser-perl_3.83-1+b2_arm64.deb ... Unpacking libhtml-parser-perl:arm64 (3.83-1+b2) ... Selecting previously unselected package libcgi-pm-perl. Preparing to unpack .../067-libcgi-pm-perl_4.68-1_all.deb ... Unpacking libcgi-pm-perl (4.68-1) ... Selecting previously unselected package libclass-data-inheritable-perl. Preparing to unpack .../068-libclass-data-inheritable-perl_0.10-1_all.deb ... Unpacking libclass-data-inheritable-perl (0.10-1) ... Selecting previously unselected package libclass-inspector-perl. Preparing to unpack .../069-libclass-inspector-perl_1.36-3_all.deb ... Unpacking libclass-inspector-perl (1.36-3) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../070-libclass-method-modifiers-perl_2.15-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.15-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../071-libclass-xsaccessor-perl_1.19-4+b5_arm64.deb ... Unpacking libclass-xsaccessor-perl (1.19-4+b5) ... Selecting previously unselected package libclone-perl:arm64. Preparing to unpack .../072-libclone-perl_0.47-1+b1_arm64.deb ... Unpacking libclone-perl:arm64 (0.47-1+b1) ... Selecting previously unselected package libconfig-tiny-perl. Preparing to unpack .../073-libconfig-tiny-perl_2.30-1_all.deb ... Unpacking libconfig-tiny-perl (2.30-1) ... Selecting previously unselected package libparams-util-perl. Preparing to unpack .../074-libparams-util-perl_1.102-3+b1_arm64.deb ... Unpacking libparams-util-perl (1.102-3+b1) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../075-libsub-install-perl_0.929-1_all.deb ... Unpacking libsub-install-perl (0.929-1) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../076-libdata-optlist-perl_0.114-1_all.deb ... Unpacking libdata-optlist-perl (0.114-1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../077-libsub-exporter-perl_0.990-1_all.deb ... Unpacking libsub-exporter-perl (0.990-1) ... Selecting previously unselected package libconst-fast-perl. Preparing to unpack .../078-libconst-fast-perl_0.014-2_all.deb ... Unpacking libconst-fast-perl (0.014-2) ... Selecting previously unselected package libcpanel-json-xs-perl:arm64. Preparing to unpack .../079-libcpanel-json-xs-perl_4.39-1_arm64.deb ... Unpacking libcpanel-json-xs-perl:arm64 (4.39-1) ... Selecting previously unselected package libdevel-stacktrace-perl. Preparing to unpack .../080-libdevel-stacktrace-perl_2.0500-1_all.deb ... Unpacking libdevel-stacktrace-perl (2.0500-1) ... Selecting previously unselected package libexception-class-perl. Preparing to unpack .../081-libexception-class-perl_1.45-1_all.deb ... Unpacking libexception-class-perl (1.45-1) ... Selecting previously unselected package libiterator-perl. Preparing to unpack .../082-libiterator-perl_0.03+ds1-2_all.deb ... Unpacking libiterator-perl (0.03+ds1-2) ... Selecting previously unselected package libiterator-util-perl. Preparing to unpack .../083-libiterator-util-perl_0.02+ds1-2_all.deb ... Unpacking libiterator-util-perl (0.02+ds1-2) ... Selecting previously unselected package libdata-dpath-perl. Preparing to unpack .../084-libdata-dpath-perl_0.60-1_all.deb ... Unpacking libdata-dpath-perl (0.60-1) ... Selecting previously unselected package libdata-messagepack-perl. Preparing to unpack .../085-libdata-messagepack-perl_1.02-3_arm64.deb ... Unpacking libdata-messagepack-perl (1.02-3) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../086-libnet-domain-tld-perl_1.75-4_all.deb ... Unpacking libnet-domain-tld-perl (1.75-4) ... Selecting previously unselected package libdata-validate-domain-perl. Preparing to unpack .../087-libdata-validate-domain-perl_0.15-1_all.deb ... Unpacking libdata-validate-domain-perl (0.15-1) ... Selecting previously unselected package libnet-ipv6addr-perl. Preparing to unpack .../088-libnet-ipv6addr-perl_1.02-1_all.deb ... Unpacking libnet-ipv6addr-perl (1.02-1) ... Selecting previously unselected package libnet-netmask-perl. Preparing to unpack .../089-libnet-netmask-perl_2.0002-2_all.deb ... Unpacking libnet-netmask-perl (2.0002-2) ... Selecting previously unselected package libnetaddr-ip-perl. Preparing to unpack .../090-libnetaddr-ip-perl_4.079+dfsg-2+b5_arm64.deb ... Unpacking libnetaddr-ip-perl (4.079+dfsg-2+b5) ... Selecting previously unselected package libdata-validate-ip-perl. Preparing to unpack .../091-libdata-validate-ip-perl_0.31-1_all.deb ... Unpacking libdata-validate-ip-perl (0.31-1) ... Selecting previously unselected package libdata-validate-uri-perl. Preparing to unpack .../092-libdata-validate-uri-perl_0.07-3_all.deb ... Unpacking libdata-validate-uri-perl (0.07-3) ... Selecting previously unselected package libdevel-size-perl. Preparing to unpack .../093-libdevel-size-perl_0.85-1_arm64.deb ... Unpacking libdevel-size-perl (0.85-1) ... Selecting previously unselected package libemail-address-xs-perl. Preparing to unpack .../094-libemail-address-xs-perl_1.05-1+b4_arm64.deb ... Unpacking libemail-address-xs-perl (1.05-1+b4) ... Selecting previously unselected package libencode-locale-perl. Preparing to unpack .../095-libencode-locale-perl_1.05-3_all.deb ... Unpacking libencode-locale-perl (1.05-3) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../096-libipc-system-simple-perl_1.30-2_all.deb ... Unpacking libipc-system-simple-perl (1.30-2) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../097-libfile-basedir-perl_0.09-2_all.deb ... Unpacking libfile-basedir-perl (0.09-2) ... Selecting previously unselected package libnumber-compare-perl. Preparing to unpack .../098-libnumber-compare-perl_0.03-3_all.deb ... Unpacking libnumber-compare-perl (0.03-3) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../099-libtext-glob-perl_0.11-3_all.deb ... Unpacking libtext-glob-perl (0.11-3) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../100-libfile-find-rule-perl_0.34-4_all.deb ... Unpacking libfile-find-rule-perl (0.34-4) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../101-libtimedate-perl_2.3300-2_all.deb ... Unpacking libtimedate-perl (2.3300-2) ... Selecting previously unselected package libhttp-date-perl. Preparing to unpack .../102-libhttp-date-perl_6.06-1_all.deb ... Unpacking libhttp-date-perl (6.06-1) ... Selecting previously unselected package libfile-listing-perl. Preparing to unpack .../103-libfile-listing-perl_6.16-1_all.deb ... Unpacking libfile-listing-perl (6.16-1) ... Selecting previously unselected package libfile-sharedir-perl. Preparing to unpack .../104-libfile-sharedir-perl_1.118-3_all.deb ... Unpacking libfile-sharedir-perl (1.118-3) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../105-libio-string-perl_1.08-4_all.deb ... Unpacking libio-string-perl (1.08-4) ... Selecting previously unselected package libfont-ttf-perl. Preparing to unpack .../106-libfont-ttf-perl_1.06-2_all.deb ... Unpacking libfont-ttf-perl (1.06-2) ... Selecting previously unselected package libio-html-perl. Preparing to unpack .../107-libio-html-perl_1.004-3_all.deb ... Unpacking libio-html-perl (1.004-3) ... Selecting previously unselected package liblwp-mediatypes-perl. Preparing to unpack .../108-liblwp-mediatypes-perl_6.04-2_all.deb ... Unpacking liblwp-mediatypes-perl (6.04-2) ... Selecting previously unselected package libhttp-message-perl. Preparing to unpack .../109-libhttp-message-perl_7.00-2_all.deb ... Unpacking libhttp-message-perl (7.00-2) ... Selecting previously unselected package libhtml-form-perl. Preparing to unpack .../110-libhtml-form-perl_6.12-1_all.deb ... Unpacking libhtml-form-perl (6.12-1) ... Selecting previously unselected package libhtml-html5-entities-perl. Preparing to unpack .../111-libhtml-html5-entities-perl_0.004-3_all.deb ... Unpacking libhtml-html5-entities-perl (0.004-3) ... Selecting previously unselected package libhtml-tree-perl. Preparing to unpack .../112-libhtml-tree-perl_5.07-3_all.deb ... Unpacking libhtml-tree-perl (5.07-3) ... Selecting previously unselected package libhttp-cookies-perl. Preparing to unpack .../113-libhttp-cookies-perl_6.11-1_all.deb ... Unpacking libhttp-cookies-perl (6.11-1) ... Selecting previously unselected package libhttp-negotiate-perl. Preparing to unpack .../114-libhttp-negotiate-perl_6.01-2_all.deb ... Unpacking libhttp-negotiate-perl (6.01-2) ... Selecting previously unselected package perl-openssl-defaults:arm64. Preparing to unpack .../115-perl-openssl-defaults_7+b2_arm64.deb ... Unpacking perl-openssl-defaults:arm64 (7+b2) ... Selecting previously unselected package libnet-ssleay-perl:arm64. Preparing to unpack .../116-libnet-ssleay-perl_1.94-3_arm64.deb ... Unpacking libnet-ssleay-perl:arm64 (1.94-3) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../117-libio-socket-ssl-perl_2.095-1_all.deb ... Unpacking libio-socket-ssl-perl (2.095-1) ... Selecting previously unselected package libnet-http-perl. Preparing to unpack .../118-libnet-http-perl_6.23-1_all.deb ... Unpacking libnet-http-perl (6.23-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../119-liblwp-protocol-https-perl_6.14-1_all.deb ... Unpacking liblwp-protocol-https-perl (6.14-1) ... Selecting previously unselected package libwww-robotrules-perl. Preparing to unpack .../120-libwww-robotrules-perl_6.02-1_all.deb ... Unpacking libwww-robotrules-perl (6.02-1) ... Selecting previously unselected package libwww-perl. Preparing to unpack .../121-libwww-perl_6.78-1_all.deb ... Unpacking libwww-perl (6.78-1) ... Selecting previously unselected package libhtml-tokeparser-simple-perl. Preparing to unpack .../122-libhtml-tokeparser-simple-perl_3.16-4_all.deb ... Unpacking libhtml-tokeparser-simple-perl (3.16-4) ... Selecting previously unselected package libimport-into-perl. Preparing to unpack .../123-libimport-into-perl_1.002005-2_all.deb ... Unpacking libimport-into-perl (1.002005-2) ... Selecting previously unselected package libio-interactive-perl. Preparing to unpack .../124-libio-interactive-perl_1.027-1_all.deb ... Unpacking libio-interactive-perl (1.027-1) ... Selecting previously unselected package libipc-run3-perl. Preparing to unpack .../125-libipc-run3-perl_0.049-1_all.deb ... Unpacking libipc-run3-perl (0.049-1) ... Selecting previously unselected package libjson-maybexs-perl. Preparing to unpack .../126-libjson-maybexs-perl_1.004008-1_all.deb ... Unpacking libjson-maybexs-perl (1.004008-1) ... Selecting previously unselected package liblist-compare-perl. Preparing to unpack .../127-liblist-compare-perl_0.55-2_all.deb ... Unpacking liblist-compare-perl (0.55-2) ... Selecting previously unselected package liblist-someutils-perl. Preparing to unpack .../128-liblist-someutils-perl_0.59-1_all.deb ... Unpacking liblist-someutils-perl (0.59-1) ... Selecting previously unselected package liblist-utilsby-perl. Preparing to unpack .../129-liblist-utilsby-perl_0.12-2_all.deb ... Unpacking liblist-utilsby-perl (0.12-2) ... Selecting previously unselected package liblz1:arm64. Preparing to unpack .../130-liblz1_1.15-3_arm64.deb ... Unpacking liblz1:arm64 (1.15-3) ... Selecting previously unselected package liblzo2-2:arm64. Preparing to unpack .../131-liblzo2-2_2.10-3+b1_arm64.deb ... Unpacking liblzo2-2:arm64 (2.10-3+b1) ... Selecting previously unselected package libmarkdown2:arm64. Preparing to unpack .../132-libmarkdown2_2.2.7-2.1_arm64.deb ... Unpacking libmarkdown2:arm64 (2.2.7-2.1) ... Selecting previously unselected package libmldbm-perl. Preparing to unpack .../133-libmldbm-perl_2.05-4_all.deb ... Unpacking libmldbm-perl (2.05-4) ... Selecting previously unselected package librole-tiny-perl. Preparing to unpack .../134-librole-tiny-perl_2.002004-1_all.deb ... Unpacking librole-tiny-perl (2.002004-1) ... Selecting previously unselected package libsub-quote-perl. Preparing to unpack .../135-libsub-quote-perl_2.006008-1_all.deb ... Unpacking libsub-quote-perl (2.006008-1) ... Selecting previously unselected package libmoo-perl. Preparing to unpack .../136-libmoo-perl_2.005005-1_all.deb ... Unpacking libmoo-perl (2.005005-1) ... Selecting previously unselected package libstrictures-perl. Preparing to unpack .../137-libstrictures-perl_2.000006-1_all.deb ... Unpacking libstrictures-perl (2.000006-1) ... Selecting previously unselected package libmoox-aliases-perl. Preparing to unpack .../138-libmoox-aliases-perl_0.001006-2_all.deb ... Unpacking libmoox-aliases-perl (0.001006-2) ... Selecting previously unselected package libmouse-perl:arm64. Preparing to unpack .../139-libmouse-perl_2.5.11-1+b1_arm64.deb ... Unpacking libmouse-perl:arm64 (2.5.11-1+b1) ... Selecting previously unselected package libpackage-stash-perl. Preparing to unpack .../140-libpackage-stash-perl_0.40-1_all.deb ... Unpacking libpackage-stash-perl (0.40-1) ... Selecting previously unselected package libsub-identify-perl. Preparing to unpack .../141-libsub-identify-perl_0.14-3+b3_arm64.deb ... Unpacking libsub-identify-perl (0.14-3+b3) ... Selecting previously unselected package libsub-name-perl:arm64. Preparing to unpack .../142-libsub-name-perl_0.28-1_arm64.deb ... Unpacking libsub-name-perl:arm64 (0.28-1) ... Selecting previously unselected package libnamespace-clean-perl. Preparing to unpack .../143-libnamespace-clean-perl_0.27-2_all.deb ... Unpacking libnamespace-clean-perl (0.27-2) ... Selecting previously unselected package libpath-tiny-perl. Preparing to unpack .../144-libpath-tiny-perl_0.148-1_all.deb ... Unpacking libpath-tiny-perl (0.148-1) ... Selecting previously unselected package libperlio-gzip-perl. Preparing to unpack .../145-libperlio-gzip-perl_0.20-1+b4_arm64.deb ... Unpacking libperlio-gzip-perl (0.20-1+b4) ... Selecting previously unselected package libperlio-utf8-strict-perl. Preparing to unpack .../146-libperlio-utf8-strict-perl_0.010-1+b3_arm64.deb ... Unpacking libperlio-utf8-strict-perl (0.010-1+b3) ... Selecting previously unselected package libproc-processtable-perl:arm64. Preparing to unpack .../147-libproc-processtable-perl_0.637-1_arm64.deb ... Unpacking libproc-processtable-perl:arm64 (0.637-1) ... Selecting previously unselected package libregexp-wildcards-perl. Preparing to unpack .../148-libregexp-wildcards-perl_1.05-3_all.deb ... Unpacking libregexp-wildcards-perl (1.05-3) ... Selecting previously unselected package libsereal-decoder-perl. Preparing to unpack .../149-libsereal-decoder-perl_5.004+ds-1+b3_arm64.deb ... Unpacking libsereal-decoder-perl (5.004+ds-1+b3) ... Selecting previously unselected package libsereal-encoder-perl. Preparing to unpack .../150-libsereal-encoder-perl_5.004+ds-1+b3_arm64.deb ... Unpacking libsereal-encoder-perl (5.004+ds-1+b3) ... Selecting previously unselected package libsort-versions-perl. Preparing to unpack .../151-libsort-versions-perl_1.62-3_all.deb ... Unpacking libsort-versions-perl (1.62-3) ... Selecting previously unselected package libxs-parse-keyword-perl. Preparing to unpack .../152-libxs-parse-keyword-perl_0.48-2_arm64.deb ... Unpacking libxs-parse-keyword-perl (0.48-2) ... Selecting previously unselected package libsyntax-keyword-try-perl. Preparing to unpack .../153-libsyntax-keyword-try-perl_0.30-1+b1_arm64.deb ... Unpacking libsyntax-keyword-try-perl (0.30-1+b1) ... Selecting previously unselected package libterm-readkey-perl. Preparing to unpack .../154-libterm-readkey-perl_2.38-2+b4_arm64.deb ... Unpacking libterm-readkey-perl (2.38-2+b4) ... Selecting previously unselected package libtext-levenshteinxs-perl. Preparing to unpack .../155-libtext-levenshteinxs-perl_0.03-5+b4_arm64.deb ... Unpacking libtext-levenshteinxs-perl (0.03-5+b4) ... Selecting previously unselected package libtext-markdown-discount-perl. Preparing to unpack .../156-libtext-markdown-discount-perl_0.18-1_arm64.deb ... Unpacking libtext-markdown-discount-perl (0.18-1) ... Selecting previously unselected package libtext-xslate-perl:arm64. Preparing to unpack .../157-libtext-xslate-perl_3.5.9-2+b1_arm64.deb ... Unpacking libtext-xslate-perl:arm64 (3.5.9-2+b1) ... Selecting previously unselected package libtime-duration-perl. Preparing to unpack .../158-libtime-duration-perl_1.21-2_all.deb ... Unpacking libtime-duration-perl (1.21-2) ... Selecting previously unselected package libtime-moment-perl. Preparing to unpack .../159-libtime-moment-perl_0.44-2+b4_arm64.deb ... Unpacking libtime-moment-perl (0.44-2+b4) ... Selecting previously unselected package libunicode-utf8-perl. Preparing to unpack .../160-libunicode-utf8-perl_0.62-3_arm64.deb ... Unpacking libunicode-utf8-perl (0.62-3) ... Selecting previously unselected package libwww-mechanize-perl. Preparing to unpack .../161-libwww-mechanize-perl_2.19-1_all.deb ... Unpacking libwww-mechanize-perl (2.19-1) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../162-libxml-namespacesupport-perl_1.12-2_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-2) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../163-libxml-sax-base-perl_1.09-3_all.deb ... Unpacking libxml-sax-base-perl (1.09-3) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../164-libxml-sax-perl_1.02+dfsg-4_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-4) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../165-libxml-libxml-perl_2.0207+dfsg+really+2.0134-6_arm64.deb ... Unpacking libxml-libxml-perl (2.0207+dfsg+really+2.0134-6) ... Selecting previously unselected package libyaml-libyaml-perl. Preparing to unpack .../166-libyaml-libyaml-perl_0.903.0+ds-1_arm64.deb ... Unpacking libyaml-libyaml-perl (0.903.0+ds-1) ... Selecting previously unselected package plzip. Preparing to unpack .../167-plzip_1.12-3_arm64.deb ... Unpacking plzip (1.12-3) ... Selecting previously unselected package lzop. Preparing to unpack .../168-lzop_1.04-2+b1_arm64.deb ... Unpacking lzop (1.04-2+b1) ... Selecting previously unselected package patchutils. Preparing to unpack .../169-patchutils_0.4.2-1+b1_arm64.deb ... Unpacking patchutils (0.4.2-1+b1) ... Selecting previously unselected package t1utils. Preparing to unpack .../170-t1utils_1.41-4+b1_arm64.deb ... Unpacking t1utils (1.41-4+b1) ... Selecting previously unselected package unzip. Preparing to unpack .../171-unzip_6.0-29_arm64.deb ... Unpacking unzip (6.0-29) ... Selecting previously unselected package lintian. Preparing to unpack .../172-lintian_2.122.0_all.deb ... Unpacking lintian (2.122.0) ... Selecting previously unselected package sbuild-build-depends-lintian-dummy:i386. Preparing to unpack .../173-sbuild-build-depends-lintian-dummy_0.invalid.0_i386.deb ... Unpacking sbuild-build-depends-lintian-dummy:i386 (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.42) ... Setting up liblz1:arm64 (1.15-3) ... Setting up libberkeleydb-perl:arm64 (0.66-1) ... Setting up plzip (1.12-3) ... 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 libtext-charwidth-perl:arm64 (0.04-11+b4) ... Setting up libnpth0t64:arm64 (1.8-3) ... Setting up libkeyutils1:arm64 (1.6.3-6) ... Setting up libunicode-utf8-perl (0.62-3) ... Setting up libmouse-perl:arm64 (2.5.11-1+b1) ... Setting up libgpg-error0:arm64 (1.55-2) ... Setting up libdata-messagepack-perl (1.02-3) ... Setting up libclass-inspector-perl (1.36-3) ... Setting up libdynaloader-functions-perl (0.004-2) ... 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:arm64 (0.47-1+b1) ... Setting up libyaml-0-2:arm64 (0.2.5-2) ... Setting up libsub-identify-perl (0.14-3+b3) ... Setting up libcpanel-json-xs-perl:arm64 (4.39-1) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libdevel-size-perl (0.85-1) ... Setting up unzip (6.0-29) ... Setting up libbrotli1:arm64 (1.1.0-2+b7) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libyaml-libyaml-perl (0.903.0+ds-1) ... Setting up libio-interactive-perl (1.027-1) ... Setting up libtry-tiny-perl (0.32-1) ... Setting up libnghttp2-14:arm64 (1.64.0-1.1+b1) ... Setting up perl-openssl-defaults:arm64 (7+b2) ... Setting up libmldbm-perl (2.05-4) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up libgcrypt20:arm64 (1.11.2-2) ... Setting up liblzo2-2:arm64 (2.10-3+b1) ... Setting up libtime-moment-perl (0.44-2+b4) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libidn2-0:arm64 (2.3.8-4) ... Setting up libcom-err2:arm64 (1.47.2-3+b3) ... 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 libtext-wrapi18n-perl (0.06-10) ... Setting up libnet-netmask-perl (2.0002-2) ... Setting up libsub-install-perl (0.929-1) ... Setting up libkrb5support0:arm64 (1.21.3-5) ... Setting up libnumber-compare-perl (0.03-3) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-9) ... Setting up patchutils (0.4.2-1+b1) ... 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+b5) ... Setting up libclass-data-inheritable-perl (0.10-1) ... Setting up libfile-find-rule-perl (0.34-4) ... 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+b1) ... Setting up diffstat (1.67-1) ... Setting up libproc2-0:arm64 (2:4.0.4-9) ... Setting up libvariable-magic-perl (0.64-1+b1) ... Setting up libio-html-perl (1.004-3) ... Setting up libb-hooks-op-check-perl:arm64 (0.22-3+b2) ... Setting up libncursesw6:arm64 (6.5+20250216-2) ... Setting up libk5crypto3:arm64 (1.21.3-5) ... Setting up libparams-util-perl (1.102-3+b1) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg1-9) ... Setting up libtime-duration-perl (1.21-2) ... Setting up libtext-xslate-perl:arm64 (3.5.9-2+b1) ... Setting up libnghttp3-9:arm64 (1.8.0-1) ... Setting up libsub-exporter-progressive-perl (0.001013-3) ... Setting up libcapture-tiny-perl (0.50-1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libsub-name-perl:arm64 (0.28-1) ... Setting up libffi8:arm64 (3.4.8-2) ... Setting up libdata-validate-domain-perl (0.15-1) ... Setting up libproc-processtable-perl:arm64 (0.637-1) ... Setting up libpath-tiny-perl (0.148-1) ... Setting up lzop (1.04-2+b1) ... Setting up libassuan9:arm64 (3.0.2-2) ... Setting up procps (2:4.0.4-9) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libtasn1-6:arm64 (4.20.0-2) ... 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 (6.5) ... Setting up libngtcp2-16:arm64 (1.11.0-1) ... 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+b5) ... Setting up libkrb5-3:arm64 (1.21.3-5) ... Setting up libstemmer0d:arm64 (3.0.1-1) ... Setting up libsort-versions-perl (1.62-3) ... Setting up libssh2-1t64:arm64 (1.11.1-1) ... Setting up libterm-readkey-perl (2.38-2+b4) ... Setting up libfont-ttf-perl (1.06-2) ... Setting up openssl (3.5.2-1) ... Setting up libtext-levenshteinxs-perl (0.03-5+b4) ... Setting up libperlio-gzip-perl (0.20-1+b4) ... Setting up readline-common (8.2-6) ... Setting up libhtml-html5-entities-perl (0.004-3) ... Setting up libsereal-decoder-perl (5.004+ds-1+b3) ... Setting up libmarkdown2:arm64 (2.2.7-2.1) ... Setting up libldap2:arm64 (2.6.10+dfsg-1) ... Setting up liburi-perl (5.30-1) ... Setting up iso-codes (4.18.0-1) ... Setting up libnet-ipv6addr-perl (1.02-1) ... Setting up libdata-validate-ip-perl (0.31-1) ... Setting up libemail-address-xs-perl (1.05-1+b4) ... Setting up libnet-ssleay-perl:arm64 (1.94-3) ... Setting up libksba8:arm64 (1.6.7-2+b1) ... 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 libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up libnet-http-perl (6.23-1) ... Setting up libtext-markdown-discount-perl (0.18-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libdevel-callchecker-perl:arm64 (0.009-2) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:arm64 (2.84.4-3) ... No schema files found: doing nothing. Setting up libdata-validate-uri-perl (0.07-3) ... Setting up libxs-parse-keyword-perl (0.48-2) ... Setting up shared-mime-info (2.4-5+b3) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up ucf (3.0052) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libsyntax-keyword-try-perl (0.30-1+b1) ... Setting up libhtml-parser-perl:arm64 (3.83-1+b2) ... Setting up gpgconf (2.4.8-3) ... Setting up libio-socket-ssl-perl (2.095-1) ... Setting up gpg (2.4.8-3) ... 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 libgnutls30t64:arm64 (3.8.10-2) ... 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 libxmlb2:arm64 (0.3.23-1) ... Setting up libparams-classify-perl:arm64 (0.015-2+b4) ... Setting up libcgi-pm-perl (4.68-1) ... Setting up libxml-sax-perl (1.02+dfsg-4) ... 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 libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-6) ... 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... Setting up libconst-fast-perl (0.014-2) ... Setting up libdata-dpath-perl (0.60-1) ... Setting up libngtcp2-crypto-gnutls8:arm64 (1.11.0-1) ... 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 libcurl3t64-gnutls:arm64 (8.15.0-1) ... Setting up liblist-someutils-perl (0.59-1) ... Setting up libappstream5:arm64 (1.0.6-1) ... Setting up appstream (1.0.6-1) ... ✔ Metadata cache was updated successfully. Setting up libmoox-aliases-perl (0.001006-2) ... Setting up libb-hooks-endofscope-perl (0.28-2) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.78-1) ... Setting up libhtml-tokeparser-simple-perl (3.16-4) ... Setting up libwww-mechanize-perl (2.19-1) ... Setting up lintian (2.122.0) ... Setting up sbuild-build-depends-lintian-dummy:i386 (0.invalid.0) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Running lintian... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Build-Space: n/a Build-Time: 1835 Distribution: unstable Foreign Architectures: i386 Host Architecture: i386 Install-Time: 44 Job: bedops_2.4.42+dfsg-1 Lintian: pass Machine Architecture: arm64 Package: bedops Package-Time: 1920 Source-Version: 2.4.42+dfsg-1 Space: n/a Status: successful Version: 2.4.42+dfsg-1 -------------------------------------------------------------------------------- Finished at 2025-08-22T18:51:32Z Build needed 00:32:00, no disk space