sbuild (Debian sbuild) 0.78.1 (09 February 2019) on mjolnir +==============================================================================+ | tracetuner 3.0.6~beta+dfsg-3 (amd64) Mon, 21 Jun 2021 00:17:26 +0000 | +==============================================================================+ Package: tracetuner Version: 3.0.6~beta+dfsg-3 Source Version: 3.0.6~beta+dfsg-3 Distribution: unstable Machine Architecture: arm64 Host Architecture: amd64 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/crossqa-sid-1a82d04d-b78e-43fd-9f12-3efbf384b67a' with '<>' I: NOTICE: Log filtering will replace 'build/tracetuner-yOPCTI/resolver-qxnIrJ' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://mirror.einval.org/debian sid InRelease [161 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:2 http://mirror.einval.org/debian sid/main Sources.diff/Index [63.6 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:4 http://mirror.einval.org/debian sid/main amd64 Packages [8639 kB] Get:5 http://mirror.einval.org/debian sid/main Sources [9143 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 Packages [8513 kB] Fetched 26.5 MB in 7s (3769 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'tracetuner' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tracetuner.git Please use: git clone https://salsa.debian.org/med-team/tracetuner.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 395 kB of source archives. Get:1 http://mirror.einval.org/debian sid/main tracetuner 3.0.6~beta+dfsg-3 (dsc) [2054 B] Get:2 http://mirror.einval.org/debian sid/main tracetuner 3.0.6~beta+dfsg-3 (tar) [385 kB] Get:3 http://mirror.einval.org/debian sid/main tracetuner 3.0.6~beta+dfsg-3 (diff) [7920 B] Fetched 395 kB in 0s (6786 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/tracetuner-yOPCTI/tracetuner-3.0.6~beta+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/tracetuner-yOPCTI' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), zlib1g-dev, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 Filtered Build-Depends: debhelper-compat (= 13), zlib1g-dev, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 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 [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [409 B] Get:5 copy:/<>/apt_archive ./ Packages [497 B] Fetched 1863 B in 0s (44.3 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... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils cpp-10-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-10-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-10-base:amd64 gcc-10-cross-base gcc-10-x86-64-linux-gnu gcc-10-x86-64-linux-gnu-base gcc-x86-64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan6:amd64 libasan6-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev:amd64 libgcc-10-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgomp1:amd64 libgomp1-amd64-cross libgssapi-krb5-2:amd64 libicu67 libio-string-perl libitm1:amd64 libitm1-amd64-cross libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross libmagic-mgc libmagic1 libnsl-dev:amd64 libnsl2:amd64 libpipeline1 libquadmath0:amd64 libquadmath0-amd64-cross libsigsegv2 libssl1.1:amd64 libstdc++-10-dev:amd64 libstdc++-10-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libtirpc-dev:amd64 libtirpc3:amd64 libtool libtsan0:amd64 libtsan0-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db po-debconf sensible-utils ucf zlib1g:amd64 zlib1g-dev:amd64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-10-locales cpp-doc dh-make binutils-multiarch g++-10-multilib-x86-64-linux-gnu gcc-10-doc gcc-10-multilib-x86-64-linux-gnu manpages-dev flex bison gdb-x86-64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:amd64 libc-l10n:amd64 locales:amd64 manpages-dev:amd64 krb5-doc:amd64 krb5-user:amd64 libstdc++-10-doc:amd64 libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:amd64 libnss-nis:amd64 libnss-nisplus:amd64 libarchive-cpio-perl krb5-locales:amd64 libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils cpp-10-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-10-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-10-base:amd64 gcc-10-cross-base gcc-10-x86-64-linux-gnu gcc-10-x86-64-linux-gnu-base gcc-x86-64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan6:amd64 libasan6-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev:amd64 libgcc-10-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgomp1:amd64 libgomp1-amd64-cross libgssapi-krb5-2:amd64 libicu67 libio-string-perl libitm1:amd64 libitm1-amd64-cross libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross libmagic-mgc libmagic1 libnsl-dev:amd64 libnsl2:amd64 libpipeline1 libquadmath0:amd64 libquadmath0-amd64-cross libsigsegv2 libssl1.1:amd64 libstdc++-10-dev:amd64 libstdc++-10-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libtirpc-dev:amd64 libtirpc3:amd64 libtool libtsan0:amd64 libtsan0-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db po-debconf sbuild-build-depends-main-dummy:amd64 sensible-utils ucf zlib1g:amd64 zlib1g-dev:amd64 0 upgraded, 104 newly installed, 0 to remove and 0 not upgraded. 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Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [928 B] Get:2 http://mirror.einval.org/debian sid/main arm64 bsdextrautils arm64 2.36.1-7 [141 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 groff-base arm64 1.22.4-6 [883 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 liblocale-gettext-perl arm64 1.07-4+b1 [18.9 kB] Get:8 http://mirror.einval.org/debian sid/main amd64 gcc-10-base amd64 10.2.1-6 [201 kB] Get:9 http://mirror.einval.org/debian sid/main arm64 sensible-utils all 0.0.14 [14.8 kB] Get:10 http://mirror.einval.org/debian sid/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get:12 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10.2.1-6cross1 [827 kB] Get:33 http://mirror.einval.org/debian sid/main arm64 libtsan0-amd64-cross all 10.2.1-6cross1 [1992 kB] Get:34 http://mirror.einval.org/debian sid/main arm64 libc6-amd64-cross all 2.31-9cross4 [1568 kB] Get:35 http://mirror.einval.org/debian sid/main arm64 libstdc++6-amd64-cross all 10.2.1-6cross1 [452 kB] Get:36 http://mirror.einval.org/debian sid/main arm64 libubsan1-amd64-cross all 10.2.1-6cross1 [776 kB] Get:37 http://mirror.einval.org/debian sid/main arm64 libquadmath0-amd64-cross all 10.2.1-6cross1 [145 kB] Get:38 http://mirror.einval.org/debian sid/main arm64 libgcc-10-dev-amd64-cross all 10.2.1-6cross1 [2326 kB] Get:39 http://mirror.einval.org/debian sid/main arm64 gcc-10-x86-64-linux-gnu arm64 10.2.1-6cross1 [52.2 MB] Get:40 http://mirror.einval.org/debian sid/main arm64 gcc-x86-64-linux-gnu arm64 4:10.2.1-1 [1460 B] Get:41 http://mirror.einval.org/debian sid/main arm64 linux-libc-dev-amd64-cross all 5.10.13-1cross4 [1396 kB] Get:42 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Get:52 http://mirror.einval.org/debian sid/main arm64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:53 http://mirror.einval.org/debian sid/main arm64 libxml-libxml-perl arm64 2.0134+dfsg-2+b1 [326 kB] Get:54 http://mirror.einval.org/debian sid/main arm64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:55 http://mirror.einval.org/debian sid/main arm64 libyaml-perl all 1.30-1 [67.7 kB] Get:56 http://mirror.einval.org/debian sid/main arm64 libconfig-auto-perl all 0.44-1.1 [19.0 kB] Get:57 http://mirror.einval.org/debian sid/main arm64 libfile-which-perl all 1.23-1 [16.6 kB] Get:58 http://mirror.einval.org/debian sid/main arm64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:59 http://mirror.einval.org/debian sid/main arm64 libdebian-dpkgcross-perl all 2.6.18+nmu1 [30.5 kB] Get:60 http://mirror.einval.org/debian sid/main arm64 dpkg-cross all 2.6.18+nmu1 [41.6 kB] Get:61 http://mirror.einval.org/debian sid/main arm64 crossbuild-essential-amd64 all 12.9 [6708 B] Get:62 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[26.8 kB] Get:73 http://mirror.einval.org/debian sid/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:74 http://mirror.einval.org/debian sid/main arm64 debhelper all 13.3.4 [1049 kB] Get:75 http://mirror.einval.org/debian sid/main amd64 libgcc-s1 amd64 10.2.1-6 [41.4 kB] Get:76 http://mirror.einval.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.18-4 [87.5 kB] Get:77 http://mirror.einval.org/debian sid/main amd64 libc6 amd64 2.31-12 [2814 kB] Get:78 http://mirror.einval.org/debian sid/main amd64 libasan6 amd64 10.2.1-6 [2065 kB] Get:79 http://mirror.einval.org/debian sid/main amd64 libatomic1 amd64 10.2.1-6 [9008 B] Get:80 http://mirror.einval.org/debian sid/main amd64 linux-libc-dev amd64 5.10.40-1 [1349 kB] Get:81 http://mirror.einval.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.18-4 [104 kB] Get:82 http://mirror.einval.org/debian sid/main amd64 libcom-err2 amd64 1.46.2-2 [74.2 kB] Get:83 http://mirror.einval.org/debian sid/main amd64 libkrb5support0 amd64 1.18.3-5 [65.2 kB] Get:84 http://mirror.einval.org/debian sid/main amd64 libk5crypto3 amd64 1.18.3-5 [114 kB] Get:85 http://mirror.einval.org/debian sid/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB] Get:86 http://mirror.einval.org/debian sid/main amd64 libssl1.1 amd64 1.1.1k-1 [1553 kB] Get:87 http://mirror.einval.org/debian sid/main amd64 libkrb5-3 amd64 1.18.3-5 [363 kB] Get:88 http://mirror.einval.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.18.3-5 [165 kB] Get:89 http://mirror.einval.org/debian sid/main amd64 libtirpc3 amd64 1.3.1-1 [83.6 kB] Get:90 http://mirror.einval.org/debian sid/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:91 http://mirror.einval.org/debian sid/main amd64 libtirpc-dev amd64 1.3.1-1 [190 kB] Get:92 http://mirror.einval.org/debian sid/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:93 http://mirror.einval.org/debian sid/main amd64 libc6-dev amd64 2.31-12 [2346 kB] Get:94 http://mirror.einval.org/debian sid/main amd64 libgomp1 amd64 10.2.1-6 [99.9 kB] Get:95 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(86.7 MB/s) Selecting previously unselected package bsdextrautils. 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Setting up libasan6-amd64-cross (10.2.1-6cross1) ... Setting up binutils-x86-64-linux-gnu (2.35.2-2) ... Setting up libstdc++6-amd64-cross (10.2.1-6cross1) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up liblsan0-amd64-cross (10.2.1-6cross1) ... Setting up libc6-dev-amd64-cross (2.31-9cross4) ... Setting up libtsan0-amd64-cross (10.2.1-6cross1) ... Setting up cpp-10-x86-64-linux-gnu (10.2.1-6cross1) ... Setting up m4 (1.4.18-5) ... Setting up libgomp1-amd64-cross (10.2.1-6cross1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libitm1-amd64-cross (10.2.1-6cross1) ... Setting up libatomic1-amd64-cross (10.2.1-6cross1) ... Setting up libquadmath0-amd64-cross (10.2.1-6cross1) ... Setting up libubsan1-amd64-cross (10.2.1-6cross1) ... Setting up ucf (3.0043) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.14-1) ... Setting up groff-base (1.22.4-6) ... Setting up cpp-x86-64-linux-gnu (4:10.2.1-1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libgcc-10-dev-amd64-cross (10.2.1-6cross1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-1) ... 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 dh-autoreconf (20) ... Setting up libxml-libxml-perl (2.0134+dfsg-2+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up gcc-10-x86-64-linux-gnu (10.2.1-6cross1) ... Setting up libstdc++-10-dev-amd64-cross (10.2.1-6cross1) ... Setting up gcc-x86-64-linux-gnu (4:10.2.1-1) ... Setting up debhelper (13.3.4) ... Setting up g++-10-x86-64-linux-gnu (10.2.1-6cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-x86-64-linux-gnu (4:10.2.1-1) ... Setting up libconfig-auto-perl (0.44-1.1) ... Setting up libdebian-dpkgcross-perl (2.6.18+nmu1) ... Setting up dpkg-cross (2.6.18+nmu1) ... Setting up crossbuild-essential-amd64 (12.9) ... Setting up libcrypt1:amd64 (1:4.4.18-4) ... Setting up libgcc-s1:amd64 (10.2.1-6) ... Setting up libc6:amd64 (2.31-12) ... Setting up libcrypt-dev:amd64 (1:4.4.18-4) ... Setting up libstdc++6:amd64 (10.2.1-6) ... Setting up liblsan0:amd64 (10.2.1-6) ... Setting up libitm1:amd64 (10.2.1-6) ... Setting up libtsan0:amd64 (10.2.1-6) ... Setting up libkeyutils1:amd64 (1.6.1-2) ... Setting up libssl1.1:amd64 (1.1.1k-1) ... Setting up zlib1g:amd64 (1:1.2.11.dfsg-2) ... Setting up libcom-err2:amd64 (1.46.2-2) ... Setting up libgomp1:amd64 (10.2.1-6) ... Setting up libasan6:amd64 (10.2.1-6) ... Setting up libkrb5support0:amd64 (1.18.3-5) ... Setting up libquadmath0:amd64 (10.2.1-6) ... Setting up libatomic1:amd64 (10.2.1-6) ... Setting up libk5crypto3:amd64 (1.18.3-5) ... Setting up libubsan1:amd64 (10.2.1-6) ... Setting up libkrb5-3:amd64 (1.18.3-5) ... Setting up libgcc-10-dev:amd64 (10.2.1-6) ... Setting up libgssapi-krb5-2:amd64 (1.18.3-5) ... Setting up libtirpc3:amd64 (1.3.1-1) ... Setting up libtirpc-dev:amd64 (1.3.1-1) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libc6-dev:amd64 (2.31-12) ... Setting up libstdc++-10-dev:amd64 (10.2.1-6) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up sbuild-build-depends-main-dummy:amd64 (0.invalid.0) ... Processing triggers for libc-bin (2.31-12) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.9.0-0.bpo.2-arm64 #1 SMP Debian 5.9.6-1~bpo10+1 (2020-11-19) arm64 (aarch64) Toolchain package versions: binutils_2.35.2-2 dpkg-dev_1.20.9 g++-10_10.2.1-6 gcc-10_10.2.1-6 libc6-dev_2.31-12 libstdc++-10-dev_10.2.1-6 libstdc++-10-dev-amd64-cross_10.2.1-6cross1 libstdc++6_10.2.1-6 libstdc++6-amd64-cross_10.2.1-6cross1 linux-libc-dev_5.10.40-1 Package versions: adduser_3.118 apt_2.2.4 autoconf_2.69-14 automake_1:1.16.3-2 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_11.1 base-passwd_3.5.50 bash_5.1-3 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libpam-runtime_1.4.0-7 libpam0g_1.4.0-7 libpcre2-8-0_10.36-2 libpcre3_2:8.39-13 libperl5.32_5.32.1-4 libpipeline1_1.5.3-1 libquadmath0_10.2.1-6 libquadmath0-amd64-cross_10.2.1-6cross1 libseccomp2_2.5.1-1 libselinux1_3.1-3 libsemanage-common_3.1-1 libsemanage1_3.1-1+b2 libsepol1_3.1-1 libsigsegv2_2.13-1 libsmartcols1_2.36.1-7 libssl1.1_1.1.1k-1 libstdc++-10-dev_10.2.1-6 libstdc++-10-dev-amd64-cross_10.2.1-6cross1 libstdc++6_10.2.1-6 libstdc++6-amd64-cross_10.2.1-6cross1 libsub-override-perl_0.09-2 libsystemd0_247.3-5 libtasn1-6_4.16.0-2 libtinfo6_6.2+20201114-2 libtirpc-common_1.3.1-1 libtirpc-dev_1.3.1-1 libtirpc3_1.3.1-1 libtool_2.4.6-15 libtsan0_10.2.1-6 libtsan0-amd64-cross_10.2.1-6cross1 libubsan1_10.2.1-6 libubsan1-amd64-cross_10.2.1-6cross1 libuchardet0_0.0.7-1 libudev1_247.3-5 libunistring2_0.9.10-4 libuuid1_2.36.1-7 libxml-libxml-perl_2.0134+dfsg-2+b1 libxml-namespacesupport-perl_1.12-1.1 libxml-sax-base-perl_1.09-1.1 libxml-sax-perl_1.02+dfsg-1 libxml-simple-perl_2.25-1 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3.0.6~beta+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://sourceforge.net/projects/tracetuner/ Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/tracetuner Vcs-Git: https://salsa.debian.org/med-team/tracetuner.git Build-Depends: debhelper-compat (= 13), zlib1g-dev Package-List: tracetuner deb science optional arch=any Checksums-Sha1: b906dd41bad02c457fe780100f1338b8d549497a 385388 tracetuner_3.0.6~beta+dfsg.orig.tar.xz 7d39c02ac0576b6aeb23f5b9dd3648039e973070 7920 tracetuner_3.0.6~beta+dfsg-3.debian.tar.xz Checksums-Sha256: 24190cef98d7f6faaac35306c496d8fe16d72991da89d25cc589dcd5619938e0 385388 tracetuner_3.0.6~beta+dfsg.orig.tar.xz 917cdcb50d7b260af00c7500741db275e4a26428ae8a48acf2e228d6c6f131a2 7920 tracetuner_3.0.6~beta+dfsg-3.debian.tar.xz Files: 1662eaa5444391d0e824ee565ee3fa29 385388 tracetuner_3.0.6~beta+dfsg.orig.tar.xz f2f51592513f7b51710b12bf3f9bd33e 7920 tracetuner_3.0.6~beta+dfsg-3.debian.tar.xz -----BEGIN PGP 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made Fri Dec 4 22:53:28 2020 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./tracetuner_3.0.6~beta+dfsg-3.dsc dpkg-source: info: extracting tracetuner in /<> dpkg-source: info: unpacking tracetuner_3.0.6~beta+dfsg.orig.tar.xz dpkg-source: info: unpacking tracetuner_3.0.6~beta+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying fix_format_security.patch dpkg-source: info: applying cross.patch Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ ulimit -c --------- 0 I: Finished running 'ulimit -c'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.amd64 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmutg PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=crossqa-sid SCHROOT_CHROOT_NAME=crossqa-sid SCHROOT_COMMAND=env SCHROOT_GID=1002 SCHROOT_GROUP=helmutg SCHROOT_SESSION_ID=crossqa-sid-1a82d04d-b78e-43fd-9f12-3efbf384b67a SCHROOT_UID=1002 SCHROOT_USER=helmutg SHELL=/bin/sh USER=helmutg dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aamd64 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package tracetuner dpkg-buildpackage: info: source version 3.0.6~beta+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type x86_64-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 amd64 debian/rules clean dh clean --sourcedirectory=src --no-parallel debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean install -d /<>/tracetuner-3.0.6\~beta\+dfsg/debian/.debhelper/generated/_source/home cd src && make -j1 clean make[2]: Entering directory '/<>/src' cd compute_qv; make clean make[3]: Entering directory '/<>/src/compute_qv' make[3]: Leaving directory '/<>/src/compute_qv' cd mktrain; make clean make[3]: Entering directory '/<>/src/mktrain' make[3]: Leaving directory '/<>/src/mktrain' cd mklut; make clean make[3]: Entering directory '/<>/src/mklut' make[3]: Leaving directory '/<>/src/mklut' cd mkchk; make clean make[3]: Entering directory '/<>/src/mkchk' make[3]: Leaving directory '/<>/src/mkchk' make[2]: Leaving directory '/<>/src' rm -rf lib obj rel make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/tracetuner.substvars debian/files rm -fr -- debian/tracetuner/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary-arch dh binary-arch --sourcedirectory=src --no-parallel dh_update_autotools_config -a -O--sourcedirectory=src dh_autoreconf -a -O--sourcedirectory=src dh_auto_configure -a -O--sourcedirectory=src install -d /<>/tracetuner-3.0.6\~beta\+dfsg/debian/.debhelper/generated/_source/home dh_auto_build -a -O--sourcedirectory=src cd src && make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=x86_64-linux-gnu-pkg-config CXX=x86_64-linux-gnu-g\+\+ CC=x86_64-linux-gnu-gcc make[1]: Entering directory '/<>/src' for dir in compute_qv mktrain mklut mkchk ; \ do (cd $dir; make EXTRACFLAGS="-g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic" LDFLAGS="-Wl,-z,relro -Wl,-z,now -Wl,--as-needed" all); \ done make[2]: Entering directory '/<>/src/compute_qv' mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c main.c -o ../../obj/Linux/main.o In file included from /usr/x86_64-linux-gnu/include/string.h:495, from main.c:27: In function ‘strncpy’, inlined from ‘main’ at main.c:1397:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1400:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ output may be truncated copying 256 bytes from a string of length 999 [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1421:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1376:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1386:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1485:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1391:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1692:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1676:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1663:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1644:21: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1636:21: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1587:21: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1580:21: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1572:21: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1546:21: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1450:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1376:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 256 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at main.c:1346:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ../mktrain/Btk_match_data.c -o ../../obj/Linux/Btk_match_data.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ../mktrain/Btk_compute_match.c -o ../../obj/Linux/Btk_compute_match.o ../mktrain/Btk_compute_match.c: In function ‘find_best_region’: ../mktrain/Btk_compute_match.c:658:13: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 658 | else | ^~~~ ../mktrain/Btk_compute_match.c:660:10: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 660 | max=i; | ^~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ../mktrain/Btk_sw.c -o ../../obj/Linux/Btk_sw.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_process_indels.c -o ../../obj/Linux/Btk_process_indels.o Btk_process_indels.c: In function ‘get_autocorrelation_indel_size’: Btk_process_indels.c:644:42: warning: variable ‘max_height’ set but not used [-Wunused-but-set-variable] 644 | float *ans[NUM_COLORS], height = 0., max_height = 0.; | ^~~~~~~~~~ Btk_process_indels.c:642:25: warning: variable ‘best_color’ set but not used [-Wunused-but-set-variable] 642 | int i, j, color, best_color, n=1; | ^~~~~~~~~~ In file included from /usr/x86_64-linux-gnu/include/string.h:495, from Btk_process_indels.c:33: In function ‘strncpy’, inlined from ‘Btk_process_indels’ at Btk_process_indels.c:2471:9: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin___strncpy_chk’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Btk_process_indels.c: In function ‘Btk_process_indels’: Btk_process_indels.c:2470:22: note: length computed here 2470 | prefix_len = strlen(options.file_name) - strlen(suffix); | ^~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_atod.c -o ../../obj/Linux/Btk_atod.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_compute_qv.c -o ../../obj/Linux/Btk_compute_qv.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_call_bases.c -o ../../obj/Linux/Btk_call_bases.o Btk_call_bases.c: In function ‘get_best_peak_color_and_index_by_base_and_location’: Btk_call_bases.c:2988:28: warning: variable ‘new_location’ set but not used [-Wunused-but-set-variable] 2988 | int new_peak_index, new_location = location; | ^~~~~~~~~~~~ Btk_call_bases.c: In function ‘call_peak_by_location_color_and_index’: Btk_call_bases.c:3199:41: warning: variable ‘r’ set but not used [-Wunused-but-set-variable] 3199 | int i = base_ind, jc = color, j, l, r, k; | ^ Btk_call_bases.c: In function ‘mark_called_peaks’: Btk_call_bases.c:3547:28: warning: variable ‘cd_length’ set but not used [-Wunused-but-set-variable] 3547 | int Case, cd_index, cd_length; | ^~~~~~~~~ Btk_call_bases.c:3547:18: warning: variable ‘cd_index’ set but not used [-Wunused-but-set-variable] 3547 | int Case, cd_index, cd_length; | ^~~~~~~~ Btk_call_bases.c: In function ‘Btk_call_bases’: Btk_call_bases.c:3697:32: warning: variable ‘cweight’ set but not used [-Wunused-but-set-variable] 3697 | double height2, nweight, cweight; | ^~~~~~~ Btk_call_bases.c:3697:23: warning: variable ‘nweight’ set but not used [-Wunused-but-set-variable] 3697 | double height2, nweight, cweight; | ^~~~~~~ Btk_call_bases.c:3691:14: warning: variable ‘debug’ set but not used [-Wunused-but-set-variable] 3691 | char *debug, base, *context=NULL; | ^~~~~ At top level: Btk_call_bases.c:117:21: warning: ‘gSpacEst0’ defined but not used [-Wunused-const-variable=] 117 | static const double gSpacEst0 = 12.0; | ^~~~~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_process_raw_data.c -o ../../obj/Linux/Btk_process_raw_data.o Btk_process_raw_data.c: In function ‘estimate_spacing_variation_of_shifted_peaks’: Btk_process_raw_data.c:1142:26: warning: variable ‘cd1’ set but not used [-Wunused-but-set-variable] 1142 | ColorData *cd0, *cd1; | ^~~ Btk_process_raw_data.c:1142:20: warning: variable ‘cd0’ set but not used [-Wunused-but-set-variable] 1142 | ColorData *cd0, *cd1; | ^~~ Btk_process_raw_data.c: In function ‘make_DP_mobility_shifts’: Btk_process_raw_data.c:2299:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 2299 | if (DEBUG_CURTIS && options->Verbose > 2 ) | ^~ Btk_process_raw_data.c:2300:28: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 2300 | putc('o', stderr); fflush(stderr); | ^~~~~~ Btk_process_raw_data.c:2650:10: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 2650 | for ( color=0; color < NUM_COLORS; color++ ) | ^~~ Btk_process_raw_data.c:2652:14: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 2652 | fprintf(fp, " %8.3g\n", shift_err[i]); | ^~~~~~~ Btk_process_raw_data.c: In function ‘normalize_signals’: Btk_process_raw_data.c:2956:40: warning: ordered comparison of pointer with integer zero [-Wpedantic] 2956 | norm_factor[i] = (num_peaks>0) ? ave_int[i][m] : -1; | ^ Btk_process_raw_data.c: In function ‘make_multicomponent_iteration’: Btk_process_raw_data.c:3305:21: warning: variable ‘best_pos’ set but not used [-Wunused-but-set-variable] 3305 | int best_pos; | ^~~~~~~~ Btk_process_raw_data.c:3247:15: warning: variable ‘det4’ set but not used [-Wunused-but-set-variable] 3247 | float det4; | ^~~~ Btk_process_raw_data.c: In function ‘make_DP_mobility_shifts.isra’: Btk_process_raw_data.c:2567:17: warning: array subscript -1 is outside array bounds of ‘float[6]’ [-Warray-bounds] 2567 | fpoly(peaks[i]->ipos+shift_flag[color], powers-1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2568 | POLYFIT_DEGREE+1); | ~~~~~~~~~~~~~~~~~ Btk_process_raw_data.c:1992:19: note: while referencing ‘powers’ 1992 | float powers[POLYFIT_DEGREE+1]; | ^~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o ../../obj/Linux/util.o util.c: In function ‘mobShiftQuality’: util.c:980:17: warning: variable ‘count’ set but not used [-Wunused-but-set-variable] 980 | int count[MAX_CHUNKS]; | ^~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c nr.c -o ../../obj/Linux/nr.o nr.c: In function ‘gaussj’: nr.c:487:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 487 | if (ipiv[j] != 1) | ^~ nr.c:497:3: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 497 | ++(ipiv[icol]); | ^~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_process_peaks.c -o ../../obj/Linux/Btk_process_peaks.o Btk_process_peaks.c: In function ‘colordata_detect_peaks’: Btk_process_peaks.c:524:45: warning: variable ‘relative_width’ set but not used [-Wunused-but-set-variable] 524 | sum_peak_width, average10_width, relative_width; | ^~~~~~~~~~~~~~ Btk_process_peaks.c: In function ‘add_one_peak’: Btk_process_peaks.c:2307:35: warning: variable ‘p2’ set but not used [-Wunused-but-set-variable] 2307 | Peak peak0, peak1, *p0, *p1, *p2; | ^~ Btk_process_peaks.c:2307:17: warning: variable ‘peak1’ set but not used [-Wunused-but-set-variable] 2307 | Peak peak0, peak1, *p0, *p1, *p2; | ^~~~~ Btk_process_peaks.c:2307:10: warning: variable ‘peak0’ set but not used [-Wunused-but-set-variable] 2307 | Peak peak0, peak1, *p0, *p1, *p2; | ^~~~~ Btk_process_peaks.c: In function ‘fit_single_peak’: Btk_process_peaks.c:2651:45: warning: variable ‘x2’ set but not used [-Wunused-but-set-variable] 2651 | double sum_exp = 0., sum_exp2 = 0., x2, B; | ^~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_qv_io.c -o ../../obj/Linux/Btk_qv_io.o Btk_qv_io.c: In function ‘Btk_read_sample_file’: Btk_qv_io.c:770:46: warning: ordered comparison of pointer with integer zero [-Wpedantic] 770 | if ((options.inp_phd == 0) && (num_bases > 0)) { | ^ Btk_qv_io.c:649:5: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 649 | fread(magic, 1, 2, fp); | ^~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/x86_64-linux-gnu/include/string.h:495, from Btk_qv_io.c:29: In function ‘strncpy’, inlined from ‘output_scf_file’ at Btk_qv_io.c:2636:5: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 4 bytes from a string of the same length [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_compute_tp.c -o ../../obj/Linux/Btk_compute_tp.o Btk_compute_tp.c: In function ‘get_peak_height_ratio’: Btk_compute_tp.c:340:58: warning: variable ‘bad_ipos’ set but not used [-Wunused-but-set-variable] 340 | double max_uncalled_ipos = -1, min_called_ipos = -1, bad_ipos; | ^~~~~~~~ Btk_compute_tp.c: In function ‘get_peak_spacing_ratio’: Btk_compute_tp.c:394:17: warning: variable ‘bad_ipos’ set but not used [-Wunused-but-set-variable] 394 | double psr, bad_ipos, ipos; | ^~~~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_compute_tpars.c -o ../../obj/Linux/Btk_compute_tpars.o Btk_compute_tpars.c: In function ‘data_create’: Btk_compute_tpars.c:215:33: warning: argument to ‘sizeof’ in ‘memset’ call is the same expression as the destination; did you mean to dereference it? [-Wsizeof-pointer-memaccess] 215 | (void)memset(data, 0, sizeof(data)); | ^ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_get_mixed_bases.c -o ../../obj/Linux/Btk_get_mixed_bases.o Btk_get_mixed_bases.c: In function ‘mixed_base’: Btk_get_mixed_bases.c:142:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 142 | else if (((b1 == 'G') && (b2 == 'T')) || ((b1 == 'T') && (b2 == 'G'))) | ^~ Btk_get_mixed_bases.c:145:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 145 | return 'N'; | ^~~~~~ Btk_get_mixed_bases.c: In function ‘find_alternative_peaks’: Btk_get_mixed_bases.c:473:34: warning: ordered comparison of pointer with integer zero [-Wpedantic] 473 | if ((num_peaks_found > 0) && | ^ Btk_get_mixed_bases.c: In function ‘call_mixed_bases’: Btk_get_mixed_bases.c:744:55: warning: variable ‘cweight’ set but not used [-Wunused-but-set-variable] 744 | double ratio, ave_wiheight, wiheight, nweight=1., cweight=1.; | ^~~~~~~ Btk_get_mixed_bases.c:744:43: warning: variable ‘nweight’ set but not used [-Wunused-but-set-variable] 744 | double ratio, ave_wiheight, wiheight, nweight=1., cweight=1.; | ^~~~~~~ Btk_get_mixed_bases.c:740:24: warning: variable ‘pos’ set but not used [-Wunused-but-set-variable] 740 | int i, j, k, n, pos, jbest, kbest, curr_num2, prev_right_bound=0; | ^~~ Btk_get_mixed_bases.c:739:25: warning: variable ‘context’ set but not used [-Wunused-but-set-variable] 739 | char base, base2,*context = NULL; | ^~~~~~~ Btk_get_mixed_bases.c:739:18: warning: variable ‘base2’ set but not used [-Wunused-but-set-variable] 739 | char base, base2,*context = NULL; | ^~~~~ Btk_get_mixed_bases.c:739:12: warning: variable ‘base’ set but not used [-Wunused-but-set-variable] 739 | char base, base2,*context = NULL; | ^~~~ Btk_get_mixed_bases.c: In function ‘Btk_get_mixed_bases’: Btk_get_mixed_bases.c:1365:31: warning: variable ‘res’ set but not used [-Wunused-but-set-variable] 1365 | double ratio, wratio, res, w1, w2; | ^~~ Btk_get_mixed_bases.c:1365:23: warning: variable ‘wratio’ set but not used [-Wunused-but-set-variable] 1365 | double ratio, wratio, res, w1, w2; | ^~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_lookup_table.c -o ../../obj/Linux/Btk_lookup_table.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_qv_funs.c -o ../../obj/Linux/Btk_qv_funs.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ABI_Toolkit.c -o ../../obj/Linux/ABI_Toolkit.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c Btk_default_table.c -o ../../obj/Linux/Btk_default_table.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c FileHandler.c -o ../../obj/Linux/FileHandler.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c SCF_Toolkit.c -o ../../obj/Linux/SCF_Toolkit.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c context_table.c -o ../../obj/Linux/context_table.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c tracepoly.c -o ../../obj/Linux/tracepoly.o tracepoly.c: In function ‘gaussj’: tracepoly.c:631:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 631 | if (ipiv[j] != 1) | ^~ tracepoly.c:641:3: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 641 | ++(ipiv[icol]); | ^~ tracepoly.c: In function ‘func_legendre_1based’: tracepoly.c:137:9: warning: array subscript -1 is outside array bounds of ‘double[3]’ [-Warray-bounds] 137 | func_legendre_1based_sub( fa, x, ptemp0-1, n ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:132:27: note: while referencing ‘ptemp0’ 132 | double *pl0 = pl1+1, ptemp0[2*NumCoef-1]; | ^~~~~~ tracepoly.c: In function ‘traceGetCoef.constprop’: tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of ‘double[8000]’ [-Warray-bounds] 790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | func_legendre_1based); | ~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:895:12: note: while referencing ‘xxxx’ 895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases]; | ^~~~ tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of ‘double[8000]’ [-Warray-bounds] 790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | func_legendre_1based); | ~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:895:33: note: while referencing ‘yyyy’ 895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases]; | ^~~~ tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of ‘double[8000]’ [-Warray-bounds] 790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | func_legendre_1based); | ~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:895:54: note: while referencing ‘sigma’ 895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases]; | ^~~~~ tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of ‘double[8000]’ [-Warray-bounds] 790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | func_legendre_1based); | ~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:895:12: note: while referencing ‘xxxx’ 895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases]; | ^~~~ tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of ‘double[8000]’ [-Warray-bounds] 790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | func_legendre_1based); | ~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:895:33: note: while referencing ‘yyyy’ 895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases]; | ^~~~ tracepoly.c:790:5: warning: array subscript -1 is outside array bounds of ‘double[8000]’ [-Warray-bounds] 790 | lfit(fa, x-1, y-1, sig-1, n_data, a-1, ia-1, na, v, &chisq, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | func_legendre_1based); | ~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:895:54: note: while referencing ‘sigma’ 895 | double xxxx[2*MaxNumBases], yyyy[2*MaxNumBases], sigma[2*MaxNumBases]; | ^~~~~ tracepoly.c: In function ‘traceCalcCutoff’: tracepoly.c:137:9: warning: array subscript -1 is outside array bounds of ‘double[3]’ [-Warray-bounds] 137 | func_legendre_1based_sub( fa, x, ptemp0-1, n ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:132:27: note: while referencing ‘ptemp0’ 132 | double *pl0 = pl1+1, ptemp0[2*NumCoef-1]; | ^~~~~~ tracepoly.c: In function ‘traceEvalPoly’: tracepoly.c:137:9: warning: array subscript -1 is outside array bounds of ‘double[3]’ [-Warray-bounds] 137 | func_legendre_1based_sub( fa, x, ptemp0-1, n ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tracepoly.c:132:27: note: while referencing ‘ptemp0’ 132 | double *pl0 = pl1+1, ptemp0[2*NumCoef-1]; | ^~~~~~ /usr/bin/ar rc ../../lib/Linux/libtt.a ../../obj/Linux/Btk_match_data.o ../../obj/Linux/Btk_compute_match.o ../../obj/Linux/Btk_sw.o ../../obj/Linux/Btk_process_indels.o ../../obj/Linux/Btk_atod.o ../../obj/Linux/Btk_compute_qv.o ../../obj/Linux/Btk_call_bases.o ../../obj/Linux/Btk_process_raw_data.o ../../obj/Linux/util.o ../../obj/Linux/nr.o ../../obj/Linux/Btk_process_peaks.o ../../obj/Linux/Btk_qv_io.o ../../obj/Linux/Btk_compute_tp.o ../../obj/Linux/Btk_compute_tpars.o ../../obj/Linux/Btk_get_mixed_bases.o ../../obj/Linux/Btk_lookup_table.o ../../obj/Linux/Btk_qv_funs.o ../../obj/Linux/ABI_Toolkit.o ../../obj/Linux/Btk_default_table.o ../../obj/Linux/FileHandler.o ../../obj/Linux/SCF_Toolkit.o ../../obj/Linux/context_table.o ../../obj/Linux/tracepoly.o x86_64-linux-gnu-gcc -g -Wall -I../mktrain -DOS_NAME='"Linux"' -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed ../../obj/Linux/main.o ../../lib/Linux/libtt.a -lm -o ../../rel/Linux/ttuner -Wl,-z,relro -Wl,-z,now -Wl,--as-needed make[2]: Leaving directory '/<>/src/compute_qv' make[2]: Entering directory '/<>/src/mktrain' mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c train.c -o ../../obj/Linux/train.o In file included from /usr/x86_64-linux-gnu/include/string.h:495, from train.c:35: In function ‘strncpy’, inlined from ‘main’ at train.c:1431:26: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at train.c:1400:23: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at train.c:1357:27: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at train.c:1511:23: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at train.c:1501:23: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at train.c:1437:23: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at train.c:1297:23: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c train_data.c -o ../../obj/Linux/train_data.o train_data.c: In function ‘append_to_train_data’: train_data.c:217:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 217 | if (Verbose > 0) | ^~ train_data.c:220:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 220 | fprintf(fout, "# Clear range start :%4d end:%4d\n", | ^~~~~~~ x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed ../../obj/Linux/train.o ../../obj/Linux/train_data.o ../../obj/Linux/Btk_compute_match.o ../../obj/Linux/Btk_match_data.o ../../obj/Linux/Btk_sw.o ../../lib/Linux/libtt.a -lm -o ../../rel/Linux/train -Wl,-z,relro -Wl,-z,now -Wl,--as-needed mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I. -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c trainphd.c -o ../../obj/Linux/trainphd.o trainphd.c: In function ‘process_projectfile’: trainphd.c:653:13: warning: variable ‘buffer2’ set but not used [-Wunused-but-set-variable] 653 | char buffer2[BUFLEN]; | ^~~~~~~ trainphd.c: In function ‘main’: trainphd.c:931:35: error: format not a string literal and no format arguments [-Werror=format-security] 931 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:940:35: error: format not a string literal and no format arguments [-Werror=format-security] 940 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:959:39: error: format not a string literal and no format arguments [-Werror=format-security] 959 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:967:39: error: format not a string literal and no format arguments [-Werror=format-security] 967 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1011:33: error: format not a string literal and no format arguments [-Werror=format-security] 1011 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1018:33: error: format not a string literal and no format arguments [-Werror=format-security] 1018 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1084:33: error: format not a string literal and no format arguments [-Werror=format-security] 1084 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1091:33: error: format not a string literal and no format arguments [-Werror=format-security] 1091 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1123:35: error: format not a string literal and no format arguments [-Werror=format-security] 1123 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1128:35: error: format not a string literal and no format arguments [-Werror=format-security] 1128 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1134:33: error: format not a string literal and no format arguments [-Werror=format-security] 1134 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ trainphd.c:1139:33: error: format not a string literal and no format arguments [-Werror=format-security] 1139 | fprintf(stderr, message.text); | ~~~~~~~^~~~~ In file included from /usr/x86_64-linux-gnu/include/string.h:495, from trainphd.c:38: In function ‘strncpy’, inlined from ‘process_dir’ at trainphd.c:608:17, inlined from ‘main’ at trainphd.c:1095:17: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin___strncpy_chk’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ trainphd.c: In function ‘main’: trainphd.c:608:40: note: length computed here 608 | strncpy(path2, string, strlen(string)-strlen(name)); // remove the phd.1 suffix | ^~~~~~~~~~~~~~ In file included from /usr/x86_64-linux-gnu/include/string.h:495, from trainphd.c:38: In function ‘strncpy’, inlined from ‘process_projectfile’ at trainphd.c:735:17, inlined from ‘main’ at trainphd.c:1105:13: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin___strncpy_chk’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ trainphd.c: In function ‘main’: trainphd.c:735:46: note: length computed here 735 | strncpy(tabFileName, string, strlen(string)-strlen(name)); // remove the phd.1 suffix | ^~~~~~~~~~~~~~ In file included from /usr/x86_64-linux-gnu/include/string.h:495, from trainphd.c:38: In function ‘strncpy’, inlined from ‘main’ at trainphd.c:1041:25: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin___strncpy_chk’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ trainphd.c: In function ‘main’: trainphd.c:1041:56: note: length computed here 1041 | strncpy(tab_file_name, string, strlen(string)-strlen(name)); | ^~~~~~~~~~~~~~ In file included from /usr/x86_64-linux-gnu/include/string.h:495, from trainphd.c:38: In function ‘strncpy’, inlined from ‘main’ at trainphd.c:896:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at trainphd.c:856:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at trainphd.c:864:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at trainphd.c:860:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at trainphd.c:818:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at trainphd.c:822:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at trainphd.c:814:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘strncpy’, inlined from ‘main’ at trainphd.c:849:19: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc1: some warnings being treated as errors make[2]: *** [../include.mk:180: ../../obj/Linux/trainphd.o] Error 1 make[2]: Leaving directory '/<>/src/mktrain' make[2]: Entering directory '/<>/src/mklut' mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I. -I/home/gdenisov/build/include/io_lib -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -I../mkchk -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c lut.c -o ../../obj/Linux/lut.o lut.c: In function ‘read_bases_and_populate_bins’: lut.c:438:26: warning: variable ‘cchar’ set but not used [-Wunused-but-set-variable] 438 | char schar, cchar; /* Sample and consensus characters. */ | ^~~~~ lut.c:437:25: warning: variable ‘cpos’ set but not used [-Wunused-but-set-variable] 437 | int spos, cpos; /* Sample and consensus positions. */ | ^~~~ lut.c:437:19: warning: variable ‘spos’ set but not used [-Wunused-but-set-variable] 437 | int spos, cpos; /* Sample and consensus positions. */ | ^~~~ lut.c: In function ‘create_qv_table_via_dynamic_programming’: lut.c:894:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 894 | for (i = 1; i < (MAX_QV / 10); i++) | ^~~ lut.c:899:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 899 | fprintf(fout, "\n"); | ^~~~~~~ lut.c: In function ‘compress_params_array’: lut.c:1012:13: warning: variable ‘max_weight’ set but not used [-Wunused-but-set-variable] 1012 | int max_weight=0, *wn; | ^~~~~~~~~~ lut.c: In function ‘read_and_sort_trace_parameters’: lut.c:1112:21: warning: variable ‘cchar’ set but not used [-Wunused-but-set-variable] 1112 | char schar, cchar; /* Sample and consensus characters. */ | ^~~~~ lut.c:1111:20: warning: variable ‘cpos’ set but not used [-Wunused-but-set-variable] 1111 | int spos, cpos; /* Sample and consensus positions. */ | ^~~~ lut.c:1111:14: warning: variable ‘spos’ set but not used [-Wunused-but-set-variable] 1111 | int spos, cpos; /* Sample and consensus positions. */ | ^~~~ lut.c: In function ‘main’: lut.c:1404:15: warning: passing argument 1 of ‘time’ makes pointer from integer without a cast [-Wint-conversion] 1404 | t1 = time((time_t) NULL); | ^ | | | long int In file included from lut.c:45: /usr/x86_64-linux-gnu/include/time.h:75:29: note: expected ‘time_t *’ {aka ‘long int *’} but argument is of type ‘long int’ 75 | extern time_t time (time_t *__timer) __THROW; | ~~~~~~~~^~~~~~~ lut.c:1449:34: warning: format ‘%d’ expects argument of type ‘int *’, but argument 3 has type ‘unsigned int *’ [-Wformat=] 1449 | sscanf(optarg, "%d", &threshold_count); | ~^ ~~~~~~~~~~~~~~~~ | | | | | unsigned int * | int * | %d lut.c:1520:15: warning: passing argument 1 of ‘time’ makes pointer from integer without a cast [-Wint-conversion] 1520 | t2 = time((time_t) NULL); | ^ | | | long int In file included from lut.c:45: /usr/x86_64-linux-gnu/include/time.h:75:29: note: expected ‘time_t *’ {aka ‘long int *’} but argument is of type ‘long int’ 75 | extern time_t time (time_t *__timer) __THROW; | ~~~~~~~~^~~~~~~ lut.c:1573:15: warning: passing argument 1 of ‘time’ makes pointer from integer without a cast [-Wint-conversion] 1573 | t2 = time((time_t) NULL); | ^ | | | long int In file included from lut.c:45: /usr/x86_64-linux-gnu/include/time.h:75:29: note: expected ‘time_t *’ {aka ‘long int *’} but argument is of type ‘long int’ 75 | extern time_t time (time_t *__timer) __THROW; | ~~~~~~~~^~~~~~~ lut.c:1604:15: warning: passing argument 1 of ‘time’ makes pointer from integer without a cast [-Wint-conversion] 1604 | t2 = time((time_t) NULL); | ^ | | | long int In file included from lut.c:45: /usr/x86_64-linux-gnu/include/time.h:75:29: note: expected ‘time_t *’ {aka ‘long int *’} but argument is of type ‘long int’ 75 | extern time_t time (time_t *__timer) __THROW; | ~~~~~~~~^~~~~~~ lut.c:1645:15: warning: passing argument 1 of ‘time’ makes pointer from integer without a cast [-Wint-conversion] 1645 | t2 = time((time_t) NULL); | ^ | | | long int In file included from lut.c:45: /usr/x86_64-linux-gnu/include/time.h:75:29: note: expected ‘time_t *’ {aka ‘long int *’} but argument is of type ‘long int’ 75 | extern time_t time (time_t *__timer) __THROW; | ~~~~~~~~^~~~~~~ In file included from /usr/x86_64-linux-gnu/include/string.h:495, from lut.c:46: In function ‘strncpy’, inlined from ‘main’ at lut.c:1459:23: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:10: warning: ‘__builtin_strncpy’ specified bound 1000 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I. -I/home/gdenisov/build/include/io_lib -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -I../mkchk -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c select.c -o ../../obj/Linux/select.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I. -I/home/gdenisov/build/include/io_lib -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -I../mkchk -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c func_name.c -o ../../obj/Linux/func_name.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I. -I/home/gdenisov/build/include/io_lib -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -I../mkchk -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c get_thresholds.c -o ../../obj/Linux/get_thresholds.o mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I. -I/home/gdenisov/build/include/io_lib -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -I../mkchk -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c ../mkchk/check_data.c -o ../../obj/Linux/check_data.o ../mkchk/check_data.c: In function ‘get_bases’: ../mkchk/check_data.c:47:25: warning: variable ‘cpos’ set but not used [-Wunused-but-set-variable] 47 | int spos, cpos; /* Sample and consensus positions. */ | ^~~~ ../mkchk/check_data.c:47:19: warning: variable ‘spos’ set but not used [-Wunused-but-set-variable] 47 | int spos, cpos; /* Sample and consensus positions. */ | ^~~~ x86_64-linux-gnu-g++ ../../obj/Linux/lut.o ../../obj/Linux/select.o ../../obj/Linux/func_name.o ../../obj/Linux/get_thresholds.o ../../obj/Linux/check_data.o -o ../../rel/Linux/lut -lm -lz ../../lib/Linux/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed make[2]: Leaving directory '/<>/src/mklut' make[2]: Entering directory '/<>/src/mkchk' mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkbc.c -o ../../obj/Linux/checkbc.o x86_64-linux-gnu-g++ ../../obj/Linux/checkbc.o ../../obj/Linux/check_data.o ../../lib/Linux/libtt.a -lm -lz -o ../../rel/Linux/checkbc -lm -lz ../../lib/Linux/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkqv.c -o ../../obj/Linux/checkqv.o checkqv.c: In function ‘crossValidate’: checkqv.c:84:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 84 | if (base[i].schar != '-') | ^~ checkqv.c:87:6: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 87 | qv = get_quality_value(base[i].parameter[0], | ^~ x86_64-linux-gnu-g++ ../../obj/Linux/checkqv.o ../../obj/Linux/check_data.o ../../lib/Linux/libtt.a -lm -lz -o ../../rel/Linux/checkqv -lm -lz ../../lib/Linux/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkbcphd.c -o ../../obj/Linux/checkbcphd.o checkbcphd.c: In function ‘errorStatswithQVs’: checkbcphd.c:197:18: warning: unknown escape sequence: '\%' 197 | char c = '\%'; | ^~~~ checkbcphd.c:50:51: warning: variable ‘qvo’ set but not used [-Wunused-but-set-variable] 50 | Nqvp[MAXNUMBINS+1], qvp[MAXNUMBINS+1], qvo[MAXNUMBINS+1]; | ^~~ checkbcphd.c:50:32: warning: variable ‘qvp’ set but not used [-Wunused-but-set-variable] 50 | Nqvp[MAXNUMBINS+1], qvp[MAXNUMBINS+1], qvo[MAXNUMBINS+1]; | ^~~ x86_64-linux-gnu-g++ ../../obj/Linux/checkbcphd.o ../../obj/Linux/check_data.o ../../lib/Linux/libtt.a -lm -lz -o ../../rel/Linux/checkbcphd -lm -lz ../../lib/Linux/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed mkdir -p ../../obj/Linux x86_64-linux-gnu-gcc -g -Wall -I../compute_qv -I../mktrain -I../mklut -I. -I -I../../../jtc_tt -I. -I../../../io_lib -I../../../io_lib/utils -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -c checkqvphd.c -o ../../obj/Linux/checkqvphd.o x86_64-linux-gnu-g++ ../../obj/Linux/checkqvphd.o ../../obj/Linux/check_data.o ../../lib/Linux/libtt.a -lm -lz -o ../../rel/Linux/checkqvphd -lm -lz ../../lib/Linux/libtt.a -Wl,-z,relro -Wl,-z,now -Wl,--as-needed make[2]: Leaving directory '/<>/src/mkchk' make[1]: Leaving directory '/<>/src' dh: command-omitted: The call to "dh_auto_test -a -O--sourcedirectory=src" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -a -O--sourcedirectory=src dh_prep -a -O--sourcedirectory=src rm -f -- debian/tracetuner.substvars rm -fr -- debian/.debhelper/generated/tracetuner/ debian/tracetuner/ debian/tmp/ dh_installdirs -a -O--sourcedirectory=src install -d debian/tracetuner/usr/bin debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install find rel -mindepth 2 -type f | xargs -r mv --target-directory=/<>/debian/tracetuner/usr/bin/ make[1]: Leaving directory '/<>' dh_installdocs -a -O--sourcedirectory=src install -d debian/tracetuner/usr/share/doc/tracetuner install -d debian/.debhelper/generated/tracetuner cp --reflink=auto -a ./src/README debian/tracetuner/usr/share/doc/tracetuner cp --reflink=auto -a ./doc/RELEASE_NOTES debian/tracetuner/usr/share/doc/tracetuner chmod -R u\+rw,go=rX debian/tracetuner/usr/share/doc install -p -m0644 debian/README.Debian debian/tracetuner/usr/share/doc/tracetuner/README.Debian install -p -m0644 debian/copyright debian/tracetuner/usr/share/doc/tracetuner/copyright dh_installchangelogs -a -O--sourcedirectory=src install -p -m0644 debian/changelog debian/tracetuner/usr/share/doc/tracetuner/changelog.Debian dh_installman -a -O--sourcedirectory=src install -d debian/tracetuner/usr/share/man/man1/ install -p -m0644 ./debian/mans/train.1 debian/tracetuner/usr/share/man/man1/train.1 install -p -m0644 ./debian/mans/trainphd.1 debian/tracetuner/usr/share/man/man1/trainphd.1 install -p -m0644 ./debian/mans/ttuner.1 debian/tracetuner/usr/share/man/man1/ttuner.1 man-recode --to-code UTF-8 --suffix .dh-new debian/tracetuner/usr/share/man/man1/train.1 debian/tracetuner/usr/share/man/man1/trainphd.1 debian/tracetuner/usr/share/man/man1/ttuner.1 mv debian/tracetuner/usr/share/man/man1/train.1.dh-new debian/tracetuner/usr/share/man/man1/train.1 mv debian/tracetuner/usr/share/man/man1/trainphd.1.dh-new debian/tracetuner/usr/share/man/man1/trainphd.1 mv debian/tracetuner/usr/share/man/man1/ttuner.1.dh-new debian/tracetuner/usr/share/man/man1/ttuner.1 chmod 0644 -- debian/tracetuner/usr/share/man/man1/train.1 debian/tracetuner/usr/share/man/man1/trainphd.1 debian/tracetuner/usr/share/man/man1/ttuner.1 dh_installsystemduser -a -O--sourcedirectory=src dh_perl -a -O--sourcedirectory=src dh_link -a -O--sourcedirectory=src dh_strip_nondeterminism -a -O--sourcedirectory=src dh_compress -a -O--sourcedirectory=src cd debian/tracetuner chmod a-x usr/share/doc/tracetuner/README usr/share/doc/tracetuner/RELEASE_NOTES usr/share/doc/tracetuner/changelog.Debian usr/share/man/man1/train.1 usr/share/man/man1/trainphd.1 usr/share/man/man1/ttuner.1 gzip -9nf usr/share/doc/tracetuner/README usr/share/doc/tracetuner/RELEASE_NOTES usr/share/doc/tracetuner/changelog.Debian usr/share/man/man1/train.1 usr/share/man/man1/trainphd.1 usr/share/man/man1/ttuner.1 cd '/<>' dh_fixperms -a -O--sourcedirectory=src find debian/tracetuner ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/tracetuner/usr/share/doc -type f -a -true -a ! -regex 'debian/tracetuner/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/tracetuner/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/tracetuner/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/tracetuner -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/tracetuner/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing -a -O--sourcedirectory=src dh_dwz -a -a -O--sourcedirectory=src install -d debian/tracetuner/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/tracetuner/usr/lib/debug/.dwz/x86_64-linux-gnu/tracetuner.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/tracetuner.debug -- debian/tracetuner/usr/bin/checkbc debian/tracetuner/usr/bin/checkbcphd debian/tracetuner/usr/bin/checkqv debian/tracetuner/usr/bin/checkqvphd debian/tracetuner/usr/bin/lut debian/tracetuner/usr/bin/train debian/tracetuner/usr/bin/ttuner x86_64-linux-gnu-objcopy --compress-debug-sections debian/tracetuner/usr/lib/debug/.dwz/x86_64-linux-gnu/tracetuner.debug dh_strip -a -a -O--sourcedirectory=src install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/ae x86_64-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/lut debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/ae/d8544bc4d8419b2e6ae9c59d9966ed39ac79fc.debug chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/ae/d8544bc4d8419b2e6ae9c59d9966ed39ac79fc.debug x86_64-linux-gnu-strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/lut x86_64-linux-gnu-objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/ae/d8544bc4d8419b2e6ae9c59d9966ed39ac79fc.debug debian/tracetuner/usr/bin/lut install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a3 x86_64-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkbc debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a3/2f27b8031cb0860a979336202816baab4a15ec.debug chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a3/2f27b8031cb0860a979336202816baab4a15ec.debug x86_64-linux-gnu-strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkbc x86_64-linux-gnu-objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/a3/2f27b8031cb0860a979336202816baab4a15ec.debug debian/tracetuner/usr/bin/checkbc install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/b1 x86_64-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkbcphd debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/b1/295f49b23febc8b5000d17ef06e3a16aaec04a.debug chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/b1/295f49b23febc8b5000d17ef06e3a16aaec04a.debug x86_64-linux-gnu-strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkbcphd x86_64-linux-gnu-objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/b1/295f49b23febc8b5000d17ef06e3a16aaec04a.debug debian/tracetuner/usr/bin/checkbcphd install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/33 x86_64-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkqv debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/33/27780b20dd1b3dd26e1569cc03bc9ca49c38e3.debug chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/33/27780b20dd1b3dd26e1569cc03bc9ca49c38e3.debug x86_64-linux-gnu-strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkqv x86_64-linux-gnu-objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/33/27780b20dd1b3dd26e1569cc03bc9ca49c38e3.debug debian/tracetuner/usr/bin/checkqv install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/62 x86_64-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/checkqvphd debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/62/83e04f05986034ddbee80b276e82b217e41a31.debug chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/62/83e04f05986034ddbee80b276e82b217e41a31.debug x86_64-linux-gnu-strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/checkqvphd x86_64-linux-gnu-objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/62/83e04f05986034ddbee80b276e82b217e41a31.debug debian/tracetuner/usr/bin/checkqvphd install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/1e x86_64-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/ttuner debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/1e/19423461644e2df2684e146e2df4a52ab439d0.debug chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/1e/19423461644e2df2684e146e2df4a52ab439d0.debug x86_64-linux-gnu-strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/ttuner x86_64-linux-gnu-objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/1e/19423461644e2df2684e146e2df4a52ab439d0.debug debian/tracetuner/usr/bin/ttuner install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/85 x86_64-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/tracetuner/usr/bin/train debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/85/cea5aa9bdfdcbbd3364dfd969a7deec6f50821.debug chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/85/cea5aa9bdfdcbbd3364dfd969a7deec6f50821.debug x86_64-linux-gnu-strip --remove-section=.comment --remove-section=.note debian/tracetuner/usr/bin/train x86_64-linux-gnu-objcopy --add-gnu-debuglink debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.build-id/85/cea5aa9bdfdcbbd3364dfd969a7deec6f50821.debug debian/tracetuner/usr/bin/train install -d debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/tracetuner/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/tracetuner/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/tracetuner/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/tracetuner/usr/lib/debug install -d debian/.debhelper/tracetuner/dbgsym-root/usr/share/doc ln -s tracetuner debian/.debhelper/tracetuner/dbgsym-root/usr/share/doc/tracetuner-dbgsym dh_makeshlibs -a -a -O--sourcedirectory=src rm -f debian/tracetuner/DEBIAN/shlibs dh_shlibdeps -a -a -O--sourcedirectory=src install -d debian/tracetuner/DEBIAN dpkg-shlibdeps -Tdebian/tracetuner.substvars debian/tracetuner/usr/bin/lut debian/tracetuner/usr/bin/checkbc debian/tracetuner/usr/bin/checkbcphd debian/tracetuner/usr/bin/checkqv debian/tracetuner/usr/bin/checkqvphd debian/tracetuner/usr/bin/ttuner debian/tracetuner/usr/bin/train dh_installdeb -a -O--sourcedirectory=src dh_gencontrol -a -O--sourcedirectory=src echo misc:Depends= >> debian/tracetuner.substvars echo misc:Pre-Depends= >> debian/tracetuner.substvars install -d debian/.debhelper/tracetuner/dbgsym-root/DEBIAN dpkg-gencontrol -ptracetuner -ldebian/changelog -Tdebian/tracetuner.substvars -Pdebian/.debhelper/tracetuner/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -UBuilt-Using -DAuto-Built-Package=debug-symbols -UProtected -DPackage=tracetuner-dbgsym "-DDepends=tracetuner (= \${binary:Version})" "-DDescription=debug symbols for tracetuner" "-DBuild-Ids=1e19423461644e2df2684e146e2df4a52ab439d0 3327780b20dd1b3dd26e1569cc03bc9ca49c38e3 6283e04f05986034ddbee80b276e82b217e41a31 85cea5aa9bdfdcbbd3364dfd969a7deec6f50821 a32f27b8031cb0860a979336202816baab4a15ec aed8544bc4d8419b2e6ae9c59d9966ed39ac79fc b1295f49b23febc8b5000d17ef06e3a16aaec04a" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/DEBIAN/control dpkg-gencontrol -ptracetuner -ldebian/changelog -Tdebian/tracetuner.substvars -Pdebian/tracetuner chmod 0644 -- debian/tracetuner/DEBIAN/control dh_md5sums -a -O--sourcedirectory=src cd debian/tracetuner >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/tracetuner/DEBIAN/md5sums cd debian/.debhelper/tracetuner/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/tracetuner/dbgsym-root/DEBIAN/md5sums dh_builddeb -a -O--sourcedirectory=src dpkg-deb --root-owner-group --build debian/tracetuner .. dpkg-deb: building package 'tracetuner' in '../tracetuner_3.0.6~beta+dfsg-3_amd64.deb'. dpkg-deb --root-owner-group --build debian/.debhelper/tracetuner/dbgsym-root .. dpkg-deb: building package 'tracetuner-dbgsym' in '../tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../tracetuner_3.0.6~beta+dfsg-3_amd64.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 2021-06-21T00:19:57Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ tracetuner_3.0.6~beta+dfsg-3_amd64.changes: ------------------------------------------- Format: 1.8 Date: Fri, 04 Dec 2020 23:43:55 +0100 Source: tracetuner Binary: tracetuner tracetuner-dbgsym Built-For-Profiles: cross nocheck Architecture: amd64 Version: 3.0.6~beta+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: tracetuner - interpretation of DNA Sanger sequencing data Changes: tracetuner (3.0.6~beta+dfsg-3) unstable; urgency=medium . * Team upload. * Standards-Version: 4.5.1 (routine-update) * debhelper-compat 13 (routine-update) * Remove trailing whitespace in debian/control (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) Checksums-Sha1: 61eb4e36b5b6e022544a01bfe85447d549fcc720 1151180 tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb d6789d36e4b461175e3c109e79fdd2287b0ed861 4932 tracetuner_3.0.6~beta+dfsg-3_amd64.buildinfo 02cf4ab9150e8650679df528a218e4dae06420e2 343488 tracetuner_3.0.6~beta+dfsg-3_amd64.deb Checksums-Sha256: 4d3fa874704da696e99f35a46c59ae1ed078e2cc2d260525024bcb4be839191b 1151180 tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb 9e8b41095932068e4ef03e2b864a56f1486565147d302ccbfb80db566ae0b94c 4932 tracetuner_3.0.6~beta+dfsg-3_amd64.buildinfo 5c70251f4ae1c7c23032b2755e3dc1f614c2cdc601d240c679b739a9741f87e9 343488 tracetuner_3.0.6~beta+dfsg-3_amd64.deb Files: d649705bb47ea4ad9be9d56eef1a925e 1151180 debug optional tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb 6d777c0f9abffe5d33b0cb274b37148a 4932 science optional tracetuner_3.0.6~beta+dfsg-3_amd64.buildinfo 93fce1c9e953e4f83cc433e84aab9b79 343488 science optional tracetuner_3.0.6~beta+dfsg-3_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: tracetuner Binary: tracetuner tracetuner-dbgsym Architecture: amd64 Version: 3.0.6~beta+dfsg-3 Checksums-Md5: d649705bb47ea4ad9be9d56eef1a925e 1151180 tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb 93fce1c9e953e4f83cc433e84aab9b79 343488 tracetuner_3.0.6~beta+dfsg-3_amd64.deb Checksums-Sha1: 61eb4e36b5b6e022544a01bfe85447d549fcc720 1151180 tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb 02cf4ab9150e8650679df528a218e4dae06420e2 343488 tracetuner_3.0.6~beta+dfsg-3_amd64.deb Checksums-Sha256: 4d3fa874704da696e99f35a46c59ae1ed078e2cc2d260525024bcb4be839191b 1151180 tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb 5c70251f4ae1c7c23032b2755e3dc1f614c2cdc601d240c679b739a9741f87e9 343488 tracetuner_3.0.6~beta+dfsg-3_amd64.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Mon, 21 Jun 2021 00:19:56 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-14), automake (= 1:1.16.3-2), autopoint (= 0.21-4), autotools-dev (= 20180224.1+nmu1), base-files (= 11.1), base-passwd (= 3.5.50), bash (= 5.1-3), binutils (= 2.35.2-2), binutils-aarch64-linux-gnu (= 2.35.2-2), binutils-common (= 2.35.2-2), bsdextrautils (= 2.36.1-7), bsdutils (= 1:2.36.1-7), build-essential (= 12.9), bzip2 (= 1.0.8-4), coreutils (= 8.32-4), cpp (= 4:10.2.1-1), cpp-10 (= 10.2.1-6), dash (= 0.5.11+git20210120+802ebd4-1), debconf (= 1.5.77), debhelper (= 13.3.4), debianutils (= 4.11.2), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.12.0-1), diffutils (= 1:3.7-5), dpkg (= 1.20.9), dpkg-dev (= 1.20.9), dwz (= 0.14-1), file (= 1:5.39-3), findutils (= 4.8.0-1), g++ (= 4:10.2.1-1), g++-10 (= 10.2.1-6), gcc (= 4:10.2.1-1), gcc-10 (= 10.2.1-6), gcc-10-base (= 10.2.1-6), gettext (= 0.21-4), gettext-base (= 0.21-4), grep (= 3.6-1), groff-base (= 1.22.4-6), gzip (= 1.10-4), hostname (= 3.23), init-system-helpers (= 1.60), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-10), libarchive-zip-perl (= 1.68-1), libasan6 (= 10.2.1-6), libatomic1 (= 10.2.1-6), libattr1 (= 1:2.4.48-6), libaudit-common (= 1:3.0-2), libaudit1 (= 1:3.0-2), libbinutils (= 2.35.2-2), libblkid1 (= 2.36.1-7), libbz2-1.0 (= 1.0.8-4), libc-bin (= 2.31-12), libc-dev-bin (= 2.31-12), libc6 (= 2.31-12), libc6-dev (= 2.31-12), libcap-ng0 (= 0.7.9-2.2+b1), libcc1-0 (= 10.2.1-6), libcom-err2 (= 1.46.2-2), libcrypt-dev (= 1:4.4.18-4), libcrypt1 (= 1:4.4.18-4), libctf-nobfd0 (= 2.35.2-2), libctf0 (= 2.35.2-2), libdb5.3 (= 5.3.28+dfsg1-0.8), libdebconfclient0 (= 0.259), libdebhelper-perl (= 13.3.4), libdpkg-perl (= 1.20.9), libelf1 (= 0.183-3), libfile-stripnondeterminism-perl (= 1.12.0-1), libgcc-10-dev (= 10.2.1-6), libgcc-s1 (= 10.2.1-6), libgcrypt20 (= 1.8.7-6), libgdbm-compat4 (= 1.19-2), libgdbm6 (= 1.19-2), libgmp10 (= 2:6.2.1+dfsg-1), libgomp1 (= 10.2.1-6), libgpg-error0 (= 1.38-2), libgssapi-krb5-2 (= 1.18.3-5), libicu67 (= 67.1-6), libisl23 (= 0.23-1), libitm1 (= 10.2.1-6), libk5crypto3 (= 1.18.3-5), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.18.3-5), libkrb5support0 (= 1.18.3-5), liblsan0 (= 10.2.1-6), liblz4-1 (= 1.9.3-2), liblzma5 (= 5.2.5-2), libmagic-mgc (= 1:5.39-3), libmagic1 (= 1:5.39-3), libmount1 (= 2.36.1-7), libmpc3 (= 1.2.0-1), libmpfr6 (= 4.1.0-3), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libpam-modules (= 1.4.0-7), libpam-modules-bin (= 1.4.0-7), libpam-runtime (= 1.4.0-7), libpam0g (= 1.4.0-7), libpcre2-8-0 (= 10.36-2), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.1-4), libpipeline1 (= 1.5.3-1), libquadmath0 (= 10.2.1-6), libseccomp2 (= 2.5.1-1), libselinux1 (= 3.1-3), libsigsegv2 (= 2.13-1), libsmartcols1 (= 2.36.1-7), libssl1.1 (= 1.1.1k-1), libstdc++-10-dev (= 10.2.1-6), libstdc++6 (= 10.2.1-6), libsub-override-perl (= 0.09-2), libsystemd0 (= 247.3-5), libtinfo6 (= 6.2+20201114-2), libtirpc-common (= 1.3.1-1), libtirpc-dev (= 1.3.1-1), libtirpc3 (= 1.3.1-1), libtool (= 2.4.6-15), libtsan0 (= 10.2.1-6), libubsan1 (= 10.2.1-6), libuchardet0 (= 0.0.7-1), libudev1 (= 247.3-5), libunistring2 (= 0.9.10-4), libuuid1 (= 2.36.1-7), libxml2 (= 2.9.10+dfsg-6.7), libzstd1 (= 1.4.8+dfsg-2.1), linux-libc-dev (= 5.10.40-1), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-5), make (= 4.3-4.1), man-db (= 2.9.4-2), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2+20201114-2), ncurses-bin (= 6.2+20201114-2), patch (= 2.7.6-7), perl (= 5.32.1-4), perl-base (= 5.32.1-4), perl-modules-5.32 (= 5.32.1-4), po-debconf (= 1.0.21+nmu1), sed (= 4.7-1), sensible-utils (= 0.0.14), sysvinit-utils (= 2.96-7), tar (= 1.34+dfsg-1), util-linux (= 2.36.1-7), xz-utils (= 5.2.5-2), zlib1g (= 1:1.2.11.dfsg-2), zlib1g-dev (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_GB.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1607121835" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ tracetuner-dbgsym_3.0.6~beta+dfsg-3_amd64.deb --------------------------------------------- new Debian package, version 2.0. size 1151180 bytes: control archive=916 bytes. 649 bytes, 12 lines control 829 bytes, 8 lines md5sums Package: tracetuner-dbgsym Source: tracetuner Version: 3.0.6~beta+dfsg-3 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 1242 Depends: tracetuner (= 3.0.6~beta+dfsg-3) Section: debug Priority: optional Description: debug symbols for tracetuner Build-Ids: 1e19423461644e2df2684e146e2df4a52ab439d0 3327780b20dd1b3dd26e1569cc03bc9ca49c38e3 6283e04f05986034ddbee80b276e82b217e41a31 85cea5aa9bdfdcbbd3364dfd969a7deec6f50821 a32f27b8031cb0860a979336202816baab4a15ec aed8544bc4d8419b2e6ae9c59d9966ed39ac79fc b1295f49b23febc8b5000d17ef06e3a16aaec04a drwxr-xr-x root/root 0 2020-12-04 22:43 ./ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/1e/ -rw-r--r-- root/root 381352 2020-12-04 22:43 ./usr/lib/debug/.build-id/1e/19423461644e2df2684e146e2df4a52ab439d0.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/33/ -rw-r--r-- root/root 360984 2020-12-04 22:43 ./usr/lib/debug/.build-id/33/27780b20dd1b3dd26e1569cc03bc9ca49c38e3.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/62/ -rw-r--r-- root/root 15688 2020-12-04 22:43 ./usr/lib/debug/.build-id/62/83e04f05986034ddbee80b276e82b217e41a31.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/85/ -rw-r--r-- root/root 387552 2020-12-04 22:43 ./usr/lib/debug/.build-id/85/cea5aa9bdfdcbbd3364dfd969a7deec6f50821.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/a3/ -rw-r--r-- root/root 15176 2020-12-04 22:43 ./usr/lib/debug/.build-id/a3/2f27b8031cb0860a979336202816baab4a15ec.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/ae/ -rw-r--r-- root/root 40128 2020-12-04 22:43 ./usr/lib/debug/.build-id/ae/d8544bc4d8419b2e6ae9c59d9966ed39ac79fc.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.build-id/b1/ -rw-r--r-- root/root 17576 2020-12-04 22:43 ./usr/lib/debug/.build-id/b1/295f49b23febc8b5000d17ef06e3a16aaec04a.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 30176 2020-12-04 22:43 ./usr/lib/debug/.dwz/x86_64-linux-gnu/tracetuner.debug drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/share/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-12-04 22:43 ./usr/share/doc/tracetuner-dbgsym -> tracetuner tracetuner_3.0.6~beta+dfsg-3_amd64.deb -------------------------------------- new Debian package, version 2.0. size 343488 bytes: control archive=1984 bytes. 2476 bytes, 50 lines control 911 bytes, 15 lines md5sums Package: tracetuner Version: 3.0.6~beta+dfsg-3 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 1626 Depends: libc6 (>= 2.29) Section: science Priority: optional Homepage: https://sourceforge.net/projects/tracetuner/ Description: interpretation of DNA Sanger sequencing data Tracetuner is a tool for base and quality calling of trace files from DNA sequencing instruments. Traditional DNA sequencing yields curves from four different channels or light frequencies that human or (preferably) machines are interpreting to determine the actual base (A,C,G or T) and the confidence with which this is determined. . TraceTuner is a DNA sequencing quality value, base calling and trace processing software application originally developed by Paracel, Inc. While providing a flexible interface and capability to adopt the "pure" base calls produced by Phred, KB or any other "original" caller, it offers competitive features not currently available in other tools, such as customized calibration of quality values, advanced heterozygote and mixed base calling and deconvolving the "mixed" electropherograms resulting from the presence of indels into a couple of "pure" electropherograms. . Later versions Previous versions of TraceTuner were used by Celera Genomics to process over 27 million reads from both Drosophila and human genome projects. In 2000, Applied Biosystems bundled TraceTuner with ABI3700 Genome Analyzers and shipped it to the customers of these capillary electrophoresis sequencers. its SNP detection and genotyping software product SeqScape. . TraceTuner implements an advanced peak processing technology for resolving overlapping peaks of the same dye color into individual, or "intrinsic" peaks. TraceTuner, for its support of mixed base calling, have been used by the research community, the private biotech sector, and the U.S. government as components of different variant detection, genotyping and forensic software applications (e.g. Applied Biosystems SeqScape, Paracel Genome Assembler, MTexpert, etc.). . This technology was protected by US Patent #6,681,186. Currently, TraceTuner is an open source software, which has been used by J. Craig Venter Institute's DNA Sequencing and Resequencing pipelines. . This package prepares an important piece of human history to be used with new data on new machines or to revisit older observations.. drwxr-xr-x root/root 0 2020-12-04 22:43 ./ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/bin/ -rwxr-xr-x root/root 18592 2020-12-04 22:43 ./usr/bin/checkbc -rwxr-xr-x root/root 18584 2020-12-04 22:43 ./usr/bin/checkbcphd -rwxr-xr-x root/root 499280 2020-12-04 22:43 ./usr/bin/checkqv -rwxr-xr-x root/root 18584 2020-12-04 22:43 ./usr/bin/checkqvphd -rwxr-xr-x root/root 34968 2020-12-04 22:43 ./usr/bin/lut -rwxr-xr-x root/root 519768 2020-12-04 22:43 ./usr/bin/train -rwxr-xr-x root/root 527960 2020-12-04 22:43 ./usr/bin/ttuner drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/share/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/share/doc/tracetuner/ -rw-r--r-- root/root 497 2020-12-04 22:43 ./usr/share/doc/tracetuner/README.Debian -rw-r--r-- root/root 1671 2008-11-28 23:00 ./usr/share/doc/tracetuner/README.gz -rw-r--r-- root/root 1625 2009-06-30 13:16 ./usr/share/doc/tracetuner/RELEASE_NOTES.gz -rw-r--r-- root/root 413 2020-12-04 22:43 ./usr/share/doc/tracetuner/changelog.Debian.gz -rw-r--r-- root/root 1157 2020-12-04 22:43 ./usr/share/doc/tracetuner/copyright drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/share/man/ drwxr-xr-x root/root 0 2020-12-04 22:43 ./usr/share/man/man1/ -rw-r--r-- root/root 1059 2020-12-04 22:43 ./usr/share/man/man1/train.1.gz -rw-r--r-- root/root 961 2020-12-04 22:43 ./usr/share/man/man1/trainphd.1.gz -rw-r--r-- root/root 1341 2020-12-04 22:43 ./usr/share/man/man1/ttuner.1.gz lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:arm64 Filtered Build-Depends: lintian:arm64 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 [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [540 B] Get:5 copy:/<>/apt_archive ./ Packages [626 B] Fetched 2129 B in 0s (49.7 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... The following additional packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils readline-common t1utils unzip Suggested packages: libxml-parser-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc zip Recommended packages: gnupg libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl The following NEW packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils readline-common sbuild-build-depends-lintian-dummy:amd64 t1utils unzip 0 upgraded, 90 newly installed, 0 to remove and 0 not upgraded. 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0.62-1+b2 [19.8 kB] Get:82 http://mirror.einval.org/debian sid/main arm64 liburi-perl all 5.08-1 [90.6 kB] Get:83 http://mirror.einval.org/debian sid/main arm64 libyaml-0-2 arm64 0.2.2-1 [45.1 kB] Get:84 http://mirror.einval.org/debian sid/main arm64 libyaml-libyaml-perl arm64 0.82+repack-1+b1 [34.5 kB] Get:85 http://mirror.einval.org/debian sid/main arm64 lzip arm64 1.22-3 [84.7 kB] Get:86 http://mirror.einval.org/debian sid/main arm64 lzop arm64 1.04-2 [82.8 kB] Get:87 http://mirror.einval.org/debian sid/main arm64 patchutils arm64 0.4.2-1 [73.5 kB] Get:88 http://mirror.einval.org/debian sid/main arm64 t1utils arm64 1.41-4 [59.8 kB] Get:89 http://mirror.einval.org/debian sid/main arm64 unzip arm64 6.0-26 [165 kB] Get:90 http://mirror.einval.org/debian sid/main arm64 lintian all 2.104.0 [1265 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7453 kB in 0s (40.8 MB/s) Selecting previously unselected package readline-common. 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Setting up libparams-classify-perl (0.015-1+b3) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libdata-dpath-perl (0.58-1) ... Setting up libmodule-implementation-perl (0.09-1.1) ... Setting up libpackage-stash-perl (0.39-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.004004-1) ... Setting up libmoox-aliases-perl (0.001006-1.1) ... Setting up libb-hooks-endofscope-perl (0.24-1.1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up lintian (2.104.0) ... Setting up sbuild-build-depends-lintian-dummy:amd64 (0.invalid.0) ... Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.31-12) ... 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: 13612 Build-Time: 63 Distribution: unstable Foreign Architectures: amd64 Host Architecture: amd64 Install-Time: 60 Job: tracetuner_3.0.6~beta+dfsg-3 Lintian: pass Machine Architecture: arm64 Package: tracetuner Package-Time: 151 Source-Version: 3.0.6~beta+dfsg-3 Space: 13612 Status: successful Version: 3.0.6~beta+dfsg-3 -------------------------------------------------------------------------------- Finished at 2021-06-21T00:19:57Z Build needed 00:02:31, 13612k disk space