sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | qtltools 1.2+dfsg-2 (s390x) Mon, 22 Jun 2020 03:57:08 +0000 | +==============================================================================+ Package: qtltools Version: 1.2+dfsg-2 Source Version: 1.2+dfsg-2 Distribution: unstable Machine Architecture: amd64 Host Architecture: s390x Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-7927f80d-1833-4a2c-9115-eb4262af41b2' with '<>' I: NOTICE: Log filtering will replace 'build/qtltools-reDV5W/resolver-0dGylH' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [146 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-06-21-0801.43.pdiff [3354 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-06-21-1400.21.pdiff [13.0 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main Sources 2020-06-21-2001.23.pdiff [10.7 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main Sources 2020-06-22-0202.50.pdiff [11.8 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-06-21-0801.43.pdiff [6153 B] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-06-21-1400.21.pdiff [6875 B] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-06-21-2001.23.pdiff [12.4 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-06-22-0202.50.pdiff [30.3 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main Sources 2020-06-22-0202.50.pdiff [11.8 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-06-22-0202.50.pdiff [30.3 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main s390x Packages [7919 kB] Fetched 8216 kB in 2s (5350 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: bsdutils fdisk libblkid1 libfdisk1 libmount1 libsmartcols1 libuuid1 mount util-linux 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2498 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://debian.oregonstate.edu/debian unstable/main amd64 bsdutils amd64 1:2.35.2-4 [146 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libblkid1 amd64 2.35.2-4 [192 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libuuid1 amd64 2.35.2-4 [81.1 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libfdisk1 amd64 2.35.2-4 [232 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libmount1 amd64 2.35.2-4 [208 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libsmartcols1 amd64 2.35.2-4 [155 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 fdisk amd64 2.35.2-4 [185 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 util-linux amd64 2.35.2-4 [1117 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 mount amd64 2.35.2-4 [180 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2498 kB in 0s (76.0 MB/s) (Reading database ... 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Processing triggers for libc-bin (2.30-8) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'qtltools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/qtltools.git Please use: git clone https://salsa.debian.org/med-team/qtltools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 13.7 MB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main qtltools 1.2+dfsg-2 (dsc) [2171 B] Get:2 http://debian.oregonstate.edu/debian unstable/main qtltools 1.2+dfsg-2 (tar) [105 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main qtltools 1.2+dfsg-2 (diff) [13.6 MB] Fetched 13.7 MB in 0s (92.2 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/qtltools-reDV5W/qtltools-1.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/qtltools-reDV5W' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper (>= 12~), libblas-dev, libboost-iostreams-dev, libboost-program-options-dev, libbz2-dev, libeigen3-dev, libgsl-dev, libhts-dev, r-mathlib, zlib1g-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-s390x:amd64, libc-dev:s390x, libstdc++-dev:s390x Filtered Build-Depends: debhelper (>= 12~), libblas-dev, libboost-iostreams-dev, libboost-program-options-dev, libbz2-dev, libeigen3-dev, libgsl-dev, libhts-dev, r-mathlib, zlib1g-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-s390x:amd64, libc-dev:s390x, libstdc++-dev:s390x 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 [456 B] Get:5 copy:/<>/apt_archive ./ Packages [545 B] Fetched 1958 B in 0s (79.2 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-s390x-linux-gnu bsdmainutils build-essential cpp-9-s390x-linux-gnu cpp-s390x-linux-gnu cross-config crossbuild-essential-s390x debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-9 g++-9-s390x-linux-gnu g++-s390x-linux-gnu gcc-10-base:s390x gcc-10-cross-base gcc-9-base:s390x gcc-9-cross-base gcc-9-s390x-linux-gnu gcc-9-s390x-linux-gnu-base gcc-s390x-linux-gnu gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libasan5:s390x libasan5-s390x-cross libatomic1:s390x libatomic1-s390x-cross libblas-dev:s390x libblas3:s390x libboost-iostreams-dev:s390x libboost-iostreams1.71-dev:s390x libboost-iostreams1.71.0:s390x libboost-program-options-dev:s390x libboost-program-options1.71-dev:s390x libboost-program-options1.71.0:s390x libboost-regex1.71-dev:s390x libboost-regex1.71.0:s390x libboost1.71-dev:s390x libbrotli1:s390x libbsd0 libbz2-1.0:s390x libbz2-dev:s390x libc6:s390x libc6-dev libc6-dev:s390x libc6-dev-s390x-cross libc6-s390x-cross libcom-err2:s390x libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:s390x libcrypt1:s390x libcurl3-gnutls:s390x libdb5.3:s390x libdebhelper-perl libdebian-dpkgcross-perl libdeflate0:s390x libdpkg-perl libeigen3-dev libelf1 libffi7:s390x libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:s390x libgcc-9-dev-s390x-cross libgcc-s1:s390x libgcc-s1-s390x-cross libgcrypt20:s390x libglib2.0-0 libgmp10:s390x libgnutls30:s390x libgomp1:s390x libgomp1-s390x-cross libgpg-error0:s390x libgsl-dev:s390x libgsl25:s390x libgslcblas0:s390x libgssapi-krb5-2:s390x libhogweed5:s390x libhts-dev:s390x libhts3:s390x libicu-dev:s390x libicu67 libicu67:s390x libidn2-0:s390x libio-string-perl libitm1:s390x libitm1-s390x-cross libk5crypto3:s390x libkeyutils1:s390x libkrb5-3:s390x libkrb5support0:s390x libldap-2.4-2:s390x libldap-common liblocale-gettext-perl liblzma-dev:s390x liblzma5:s390x libmagic-mgc libmagic1 libnettle7:s390x libnghttp2-14:s390x libp11-kit0:s390x libperl5.30 libpipeline1 libpsl5:s390x librtmp1:s390x libsasl2-2:s390x libsasl2-modules-db:s390x libsigsegv2 libssh2-1:s390x libssl1.1:s390x libstdc++-9-dev libstdc++-9-dev:s390x libstdc++-9-dev-s390x-cross libstdc++6:s390x libstdc++6-s390x-cross libsub-override-perl libtasn1-6:s390x libtool libubsan1:s390x libubsan1-s390x-cross libuchardet0 libunistring2:s390x libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:s390x linux-libc-dev:s390x linux-libc-dev-s390x-cross m4 man-db perl perl-modules-5.30 pkg-config po-debconf r-mathlib:s390x sensible-utils ucf zlib1g:s390x zlib1g-dev:s390x Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc calendar wamerican | wordlist whois vacation gcc-9-locales cpp-doc dh-make binutils-multiarch debian-keyring g++-multilib g++-9-multilib gcc-9-doc g++-9-multilib-s390x-linux-gnu gcc-9-multilib-s390x-linux-gnu manpages-dev flex bison gdb-s390x-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff liblapack-doc:s390x libboost1.71-doc:s390x libboost-atomic1.71-dev:s390x libboost-chrono1.71-dev:s390x libboost-container1.71-dev:s390x libboost-context1.71-dev:s390x libboost-contract1.71-dev:s390x libboost-coroutine1.71-dev:s390x libboost-date-time1.71-dev:s390x libboost-exception1.71-dev:s390x libboost-fiber1.71-dev:s390x libboost-filesystem1.71-dev:s390x libboost-graph1.71-dev:s390x libboost-graph-parallel1.71-dev:s390x libboost-locale1.71-dev:s390x libboost-log1.71-dev:s390x libboost-math1.71-dev:s390x libboost-mpi1.71-dev:s390x libboost-mpi-python1.71-dev:s390x libboost-numpy1.71-dev:s390x libboost-python1.71-dev:s390x libboost-random1.71-dev:s390x libboost-serialization1.71-dev:s390x libboost-stacktrace1.71-dev:s390x libboost-system1.71-dev:s390x libboost-test1.71-dev:s390x libboost-thread1.71-dev:s390x libboost-timer1.71-dev:s390x libboost-type-erasure1.71-dev:s390x libboost-wave1.71-dev:s390x libboost1.71-tools-dev:s390x libmpfrc++-dev:s390x libntl-dev:s390x glibc-doc:s390x libc-l10n:s390x locales:s390x glibc-doc manpages-dev:s390x gnupg | gnupg2 git bzr libeigen3-doc libmpfrc++-dev rng-tools:s390x gnutls-bin:s390x gsl-ref-psdoc:s390x | gsl-doc-pdf:s390x | gsl-doc-info:s390x | gsl-ref-html:s390x krb5-doc:s390x krb5-user:s390x icu-doc:s390x liblzma-doc:s390x libstdc++-9-doc libstdc++-9-doc:s390x libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl libmail-box-perl Recommended packages: bsdextrautils gnupg | gnupg2 libalgorithm-merge-perl curl | wget | lynx bzip2-doc:s390x ca-certificates:s390x libfile-fcntllock-perl libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgpg-error-l10n:s390x krb5-locales:s390x publicsuffix:s390x libsasl2-modules:s390x libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl netbase libmail-sendmail-perl r-base-core:s390x r-base-dev:s390x The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-s390x-linux-gnu bsdmainutils build-essential cpp-9-s390x-linux-gnu cpp-s390x-linux-gnu cross-config crossbuild-essential-s390x debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dpkg-dev dwz file g++ g++-9 g++-9-s390x-linux-gnu g++-s390x-linux-gnu gcc-10-base:s390x gcc-10-cross-base gcc-9-base:s390x gcc-9-cross-base gcc-9-s390x-linux-gnu gcc-9-s390x-linux-gnu-base gcc-s390x-linux-gnu gettext gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl libasan5:s390x libasan5-s390x-cross libatomic1:s390x libatomic1-s390x-cross libblas-dev:s390x libblas3:s390x libboost-iostreams-dev:s390x libboost-iostreams1.71-dev:s390x libboost-iostreams1.71.0:s390x libboost-program-options-dev:s390x libboost-program-options1.71-dev:s390x libboost-program-options1.71.0:s390x libboost-regex1.71-dev:s390x libboost-regex1.71.0:s390x libboost1.71-dev:s390x libbrotli1:s390x libbsd0 libbz2-1.0:s390x libbz2-dev:s390x libc6:s390x libc6-dev libc6-dev:s390x libc6-dev-s390x-cross libc6-s390x-cross libcom-err2:s390x libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:s390x libcrypt1:s390x libcurl3-gnutls:s390x libdb5.3:s390x libdebhelper-perl libdebian-dpkgcross-perl libdeflate0:s390x libdpkg-perl libeigen3-dev libelf1 libffi7:s390x libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:s390x libgcc-9-dev-s390x-cross libgcc-s1:s390x libgcc-s1-s390x-cross libgcrypt20:s390x libglib2.0-0 libgmp10:s390x libgnutls30:s390x libgomp1:s390x libgomp1-s390x-cross libgpg-error0:s390x libgsl-dev:s390x libgsl25:s390x libgslcblas0:s390x libgssapi-krb5-2:s390x libhogweed5:s390x libhts-dev:s390x libhts3:s390x libicu-dev:s390x libicu67 libicu67:s390x libidn2-0:s390x libio-string-perl libitm1:s390x libitm1-s390x-cross libk5crypto3:s390x libkeyutils1:s390x libkrb5-3:s390x libkrb5support0:s390x libldap-2.4-2:s390x libldap-common liblocale-gettext-perl liblzma-dev:s390x liblzma5:s390x libmagic-mgc libmagic1 libnettle7:s390x libnghttp2-14:s390x libp11-kit0:s390x libperl5.30 libpipeline1 libpsl5:s390x librtmp1:s390x libsasl2-2:s390x libsasl2-modules-db:s390x libsigsegv2 libssh2-1:s390x libssl1.1:s390x libstdc++-9-dev libstdc++-9-dev:s390x libstdc++-9-dev-s390x-cross libstdc++6:s390x libstdc++6-s390x-cross libsub-override-perl libtasn1-6:s390x libtool libubsan1:s390x libubsan1-s390x-cross libuchardet0 libunistring2:s390x libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl libzstd1:s390x linux-libc-dev:s390x linux-libc-dev-s390x-cross m4 man-db perl perl-modules-5.30 pkg-config po-debconf r-mathlib:s390x sbuild-build-depends-main-dummy:s390x sensible-utils ucf zlib1g:s390x zlib1g-dev:s390x 0 upgraded, 160 newly installed, 0 to remove and 0 not upgraded. Need to get 133 MB of archives. After this operation, 652 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [972 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.10.0-1 [107 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 bsdmainutils amd64 12.1.1+b1 [53.2 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-5 [920 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.2-1 [1315 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 perl-modules-5.30 all 5.30.3-4 [2806 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libperl5.30 amd64 5.30.3-4 [4019 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 perl amd64 5.30.3-4 [290 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4 [18.8 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main s390x gcc-10-base s390x 10.1.0-4 [197 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main s390x gcc-9-base s390x 9.3.0-14 [197 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-5 [262 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-5 [120 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-5 [67.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0043 [74.0 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.2-1 [775 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-s390x-linux-gnu amd64 2.34-8 [1946 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.16-1 [104 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.30-8 [2631 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.3.0-14 [1701 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.3.0-14 [10.7 MB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libdpkg-perl all 1.19.7 [1414 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-dev all 1.19.7 [1773 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-s390x-linux-gnu-base amd64 9.3.0-13cross1 [197 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-s390x-linux-gnu amd64 9.3.0-13cross1 [6145 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-s390x-linux-gnu amd64 4:9.2.1-3.1 [16.7 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.3.0-13cross1 [193 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10.1.0-3cross1 [194 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-s390x-cross all 2.30-2cross1 [1246 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-s390x-cross all 10.1.0-3cross1 [24.7 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-s390x-cross all 10.1.0-3cross1 [90.0 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libitm1-s390x-cross all 10.1.0-3cross1 [24.9 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-s390x-cross all 10.1.0-3cross1 [7940 B] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-s390x-cross all 9.3.0-13cross1 [338 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-s390x-cross all 10.1.0-3cross1 [440 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-s390x-cross all 10.1.0-3cross1 [125 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-s390x-cross all 9.3.0-13cross1 [681 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-s390x-linux-gnu amd64 9.3.0-13cross1 [6529 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-s390x-linux-gnu amd64 4:9.2.1-3.1 [1456 B] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-s390x-cross all 5.4.19-1cross1 [1173 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-s390x-cross all 2.30-2cross1 [2207 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-s390x-cross all 9.3.0-13cross1 [1652 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-s390x-linux-gnu amd64 9.3.0-13cross1 [6729 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 g++-s390x-linux-gnu amd64 4:9.2.1-3.1 [1176 B] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libicu67 amd64 67.1-2 [8610 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-5+b1 [710 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-s390x all 12.8 [6636 B] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13.1 [187 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.8.1-1 [14.9 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.64.3-1 [1341 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13.1 [1012 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 icu-devtools amd64 67.1-2 [199 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main s390x libgcc-s1 s390x 10.1.0-4 [24.6 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main s390x libcrypt1 s390x 1:4.4.16-1 [89.0 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main s390x libc6 s390x 2.30-8 [2465 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main s390x libasan5 s390x 9.3.0-14 [344 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main s390x libatomic1 s390x 10.1.0-4 [8104 B] Get:94 http://debian.oregonstate.edu/debian unstable/main s390x libblas3 s390x 3.9.0-2 [130 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main s390x libblas-dev s390x 3.9.0-2 [134 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main s390x libgomp1 s390x 10.1.0-4 [92.0 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main s390x libitm1 s390x 10.1.0-4 [25.3 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main s390x libstdc++6 s390x 10.1.0-4 [483 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main s390x libubsan1 s390x 10.1.0-4 [125 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main s390x libgcc-9-dev s390x 9.3.0-14 [681 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main s390x linux-libc-dev s390x 5.6.14-2 [1113 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main s390x libcrypt-dev s390x 1:4.4.16-1 [107 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main s390x libc6-dev s390x 2.30-8 [2237 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main s390x libstdc++-9-dev s390x 9.3.0-14 [1664 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main s390x libboost1.71-dev s390x 1.71.0-6+b2 [9095 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main s390x libicu67 s390x 67.1-2 [8336 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main s390x libboost-regex1.71.0 s390x 1.71.0-6+b2 [461 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main s390x libicu-dev s390x 67.1-2 [9251 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main s390x libboost-regex1.71-dev s390x 1.71.0-6+b2 [553 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main s390x libbz2-1.0 s390x 1.0.8-3 [45.8 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main s390x liblzma5 s390x 5.2.4-1+b1 [151 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main s390x libzstd1 s390x 1.4.5+dfsg-2 [287 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main s390x zlib1g s390x 1:1.2.11.dfsg-2 [88.9 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main s390x libboost-iostreams1.71.0 s390x 1.71.0-6+b2 [259 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main s390x libboost-iostreams1.71-dev s390x 1.71.0-6+b2 [270 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main s390x libboost-iostreams-dev s390x 1.71.0.3 [4112 B] Get:117 http://debian.oregonstate.edu/debian unstable/main s390x libboost-program-options1.71.0 s390x 1.71.0-6+b2 [350 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main s390x libboost-program-options1.71-dev s390x 1.71.0-6+b2 [385 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main s390x libboost-program-options-dev s390x 1.71.0.3 [4132 B] Get:120 http://debian.oregonstate.edu/debian unstable/main s390x libbrotli1 s390x 1.0.7-6.1 [259 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main s390x libbz2-dev s390x 1.0.8-3 [30.2 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main s390x libcom-err2 s390x 1.45.6-1 [71.6 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main s390x libgmp10 s390x 2:6.2.0+dfsg-6 [238 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main s390x libnettle7 s390x 3.5.1+really3.5.1-2 [233 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main s390x libhogweed5 s390x 3.5.1+really3.5.1-2 [136 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main s390x libunistring2 s390x 0.9.10-4 [366 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main s390x libidn2-0 s390x 2.3.0-1 [84.5 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main s390x libffi7 s390x 3.3-4 [19.9 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main s390x libp11-kit0 s390x 0.23.20-1 [320 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main s390x libtasn1-6 s390x 4.16.0-2 [52.5 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main s390x libgnutls30 s390x 3.6.14-2 [1133 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main s390x libkrb5support0 s390x 1.17-10 [63.8 kB] Get:133 http://debian.oregonstate.edu/debian unstable/main s390x libk5crypto3 s390x 1.17-10 [113 kB] Get:134 http://debian.oregonstate.edu/debian unstable/main s390x libkeyutils1 s390x 1.6.1-2 [15.2 kB] Get:135 http://debian.oregonstate.edu/debian unstable/main s390x libssl1.1 s390x 1.1.1g-1 [1202 kB] Get:136 http://debian.oregonstate.edu/debian unstable/main s390x libkrb5-3 s390x 1.17-10 [343 kB] Get:137 http://debian.oregonstate.edu/debian unstable/main s390x libgssapi-krb5-2 s390x 1.17-10 [145 kB] Get:138 http://debian.oregonstate.edu/debian unstable/main s390x libdb5.3 s390x 5.3.28+dfsg1-0.6 [612 kB] Get:139 http://debian.oregonstate.edu/debian unstable/main s390x libsasl2-modules-db s390x 2.1.27+dfsg-2 [68.1 kB] Get:140 http://debian.oregonstate.edu/debian unstable/main s390x libsasl2-2 s390x 2.1.27+dfsg-2 [103 kB] Get:141 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-common all 2.4.50+dfsg-1 [92.9 kB] Get:142 http://debian.oregonstate.edu/debian unstable/main s390x libldap-2.4-2 s390x 2.4.50+dfsg-1 [216 kB] Get:143 http://debian.oregonstate.edu/debian unstable/main s390x libnghttp2-14 s390x 1.41.0-2 [67.7 kB] Get:144 http://debian.oregonstate.edu/debian unstable/main s390x libpsl5 s390x 0.21.0-1.1 [55.0 kB] Get:145 http://debian.oregonstate.edu/debian unstable/main s390x librtmp1 s390x 2.4+20151223.gitfa8646d.1-2+b1 [56.5 kB] Get:146 http://debian.oregonstate.edu/debian unstable/main s390x libgpg-error0 s390x 1.38-1 [72.9 kB] Get:147 http://debian.oregonstate.edu/debian unstable/main s390x libgcrypt20 s390x 1.8.5-5 [487 kB] Get:148 http://debian.oregonstate.edu/debian unstable/main s390x libssh2-1 s390x 1.8.0-2.1 [132 kB] Get:149 http://debian.oregonstate.edu/debian unstable/main s390x libcurl3-gnutls s390x 7.68.0-1 [298 kB] Get:150 http://debian.oregonstate.edu/debian unstable/main s390x libdeflate0 s390x 1.6-1 [51.8 kB] Get:151 http://debian.oregonstate.edu/debian unstable/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] Get:152 http://debian.oregonstate.edu/debian unstable/main amd64 libeigen3-dev all 3.3.7-2 [850 kB] Get:153 http://debian.oregonstate.edu/debian unstable/main s390x libgslcblas0 s390x 2.6+dfsg-2 [91.7 kB] Get:154 http://debian.oregonstate.edu/debian unstable/main s390x libgsl25 s390x 2.6+dfsg-2 [834 kB] Get:155 http://debian.oregonstate.edu/debian unstable/main s390x libgsl-dev s390x 2.6+dfsg-2 [1001 kB] Get:156 http://debian.oregonstate.edu/debian unstable/main s390x libhts3 s390x 1.10.2-3 [340 kB] Get:157 http://debian.oregonstate.edu/debian unstable/main s390x liblzma-dev s390x 5.2.4-1+b1 [210 kB] Get:158 http://debian.oregonstate.edu/debian unstable/main s390x zlib1g-dev s390x 1:1.2.11.dfsg-2 [189 kB] Get:159 http://debian.oregonstate.edu/debian unstable/main s390x libhts-dev s390x 1.10.2-3 [4859 kB] Get:160 http://debian.oregonstate.edu/debian unstable/main s390x r-mathlib s390x 4.0.1-1 [2014 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 133 MB in 1s (115 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 10321 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.10.0-1_amd64.deb ... Unpacking libbsd0:amd64 (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_12.1.1+b1_amd64.deb ... Unpacking bsdmainutils (12.1.1+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../002-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-5_amd64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../004-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.9.2-1_amd64.deb ... Unpacking man-db (2.9.2-1) ... Selecting previously unselected package perl-modules-5.30. Preparing to unpack .../006-perl-modules-5.30_5.30.3-4_all.deb ... Unpacking perl-modules-5.30 (5.30.3-4) ... Selecting previously unselected package libperl5.30:amd64. Preparing to unpack .../007-libperl5.30_5.30.3-4_amd64.deb ... Unpacking libperl5.30:amd64 (5.30.3-4) ... Selecting previously unselected package perl. Preparing to unpack .../008-perl_5.30.3-4_amd64.deb ... Unpacking perl (5.30.3-4) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../009-liblocale-gettext-perl_1.07-4_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-4) ... Selecting previously unselected package gcc-10-base:s390x. Preparing to unpack .../010-gcc-10-base_10.1.0-4_s390x.deb ... Unpacking gcc-10-base:s390x (10.1.0-4) ... Selecting previously unselected package gcc-9-base:s390x. Preparing to unpack .../011-gcc-9-base_9.3.0-14_s390x.deb ... Unpacking gcc-9-base:s390x (9.3.0-14) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../012-sensible-utils_0.0.12+nmu1_all.deb ... Unpacking sensible-utils (0.0.12+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../013-libmagic-mgc_1%3a5.38-5_amd64.deb ... Unpacking libmagic-mgc (1:5.38-5) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../014-libmagic1_1%3a5.38-5_amd64.deb ... Unpacking libmagic1:amd64 (1:5.38-5) ... Selecting previously unselected package file. Preparing to unpack .../015-file_1%3a5.38-5_amd64.deb ... Unpacking file (1:5.38-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../016-gettext-base_0.19.8.1-10_amd64.deb ... Unpacking gettext-base (0.19.8.1-10) ... Selecting previously unselected package ucf. Preparing to unpack .../017-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:amd64. 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Selecting previously unselected package libkeyutils1:s390x. Preparing to unpack .../132-libkeyutils1_1.6.1-2_s390x.deb ... Unpacking libkeyutils1:s390x (1.6.1-2) ... Selecting previously unselected package libssl1.1:s390x. Preparing to unpack .../133-libssl1.1_1.1.1g-1_s390x.deb ... Unpacking libssl1.1:s390x (1.1.1g-1) ... Selecting previously unselected package libkrb5-3:s390x. Preparing to unpack .../134-libkrb5-3_1.17-10_s390x.deb ... Unpacking libkrb5-3:s390x (1.17-10) ... Selecting previously unselected package libgssapi-krb5-2:s390x. Preparing to unpack .../135-libgssapi-krb5-2_1.17-10_s390x.deb ... Unpacking libgssapi-krb5-2:s390x (1.17-10) ... Selecting previously unselected package libdb5.3:s390x. Preparing to unpack .../136-libdb5.3_5.3.28+dfsg1-0.6_s390x.deb ... Unpacking libdb5.3:s390x (5.3.28+dfsg1-0.6) ... Selecting previously unselected package libsasl2-modules-db:s390x. Preparing to unpack .../137-libsasl2-modules-db_2.1.27+dfsg-2_s390x.deb ... Unpacking libsasl2-modules-db:s390x (2.1.27+dfsg-2) ... Selecting previously unselected package libsasl2-2:s390x. Preparing to unpack .../138-libsasl2-2_2.1.27+dfsg-2_s390x.deb ... Unpacking libsasl2-2:s390x (2.1.27+dfsg-2) ... Selecting previously unselected package libldap-common. Preparing to unpack .../139-libldap-common_2.4.50+dfsg-1_all.deb ... Unpacking libldap-common (2.4.50+dfsg-1) ... Selecting previously unselected package libldap-2.4-2:s390x. Preparing to unpack .../140-libldap-2.4-2_2.4.50+dfsg-1_s390x.deb ... Unpacking libldap-2.4-2:s390x (2.4.50+dfsg-1) ... Selecting previously unselected package libnghttp2-14:s390x. Preparing to unpack .../141-libnghttp2-14_1.41.0-2_s390x.deb ... Unpacking libnghttp2-14:s390x (1.41.0-2) ... Selecting previously unselected package libpsl5:s390x. Preparing to unpack .../142-libpsl5_0.21.0-1.1_s390x.deb ... Unpacking libpsl5:s390x (0.21.0-1.1) ... Selecting previously unselected package librtmp1:s390x. Preparing to unpack .../143-librtmp1_2.4+20151223.gitfa8646d.1-2+b1_s390x.deb ... Unpacking librtmp1:s390x (2.4+20151223.gitfa8646d.1-2+b1) ... Selecting previously unselected package libgpg-error0:s390x. Preparing to unpack .../144-libgpg-error0_1.38-1_s390x.deb ... Unpacking libgpg-error0:s390x (1.38-1) ... Selecting previously unselected package libgcrypt20:s390x. Preparing to unpack .../145-libgcrypt20_1.8.5-5_s390x.deb ... Unpacking libgcrypt20:s390x (1.8.5-5) ... Selecting previously unselected package libssh2-1:s390x. Preparing to unpack .../146-libssh2-1_1.8.0-2.1_s390x.deb ... Unpacking libssh2-1:s390x (1.8.0-2.1) ... Selecting previously unselected package libcurl3-gnutls:s390x. Preparing to unpack .../147-libcurl3-gnutls_7.68.0-1_s390x.deb ... Unpacking libcurl3-gnutls:s390x (7.68.0-1) ... Selecting previously unselected package libdeflate0:s390x. Preparing to unpack .../148-libdeflate0_1.6-1_s390x.deb ... Unpacking libdeflate0:s390x (1.6-1) ... 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Selecting previously unselected package liblzma-dev:s390x. Preparing to unpack .../155-liblzma-dev_5.2.4-1+b1_s390x.deb ... Unpacking liblzma-dev:s390x (5.2.4-1+b1) ... Selecting previously unselected package zlib1g-dev:s390x. Preparing to unpack .../156-zlib1g-dev_1%3a1.2.11.dfsg-2_s390x.deb ... Unpacking zlib1g-dev:s390x (1:1.2.11.dfsg-2) ... Selecting previously unselected package libhts-dev:s390x. Preparing to unpack .../157-libhts-dev_1.10.2-3_s390x.deb ... Unpacking libhts-dev:s390x (1.10.2-3) ... Selecting previously unselected package r-mathlib:s390x. Preparing to unpack .../158-r-mathlib_4.0.1-1_s390x.deb ... Unpacking r-mathlib:s390x (4.0.1-1) ... Selecting previously unselected package sbuild-build-depends-main-dummy:s390x. Preparing to unpack .../159-sbuild-build-depends-main-dummy_0.invalid.0_s390x.deb ... Unpacking sbuild-build-depends-main-dummy:s390x (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up libpipeline1:amd64 (1.5.2-2) ... Setting up binutils-s390x-linux-gnu (2.34-8) ... Setting up perl-modules-5.30 (5.30.3-4) ... Setting up libicu67:amd64 (67.1-2) ... Setting up libmagic-mgc (1:5.38-5) ... Setting up libglib2.0-0:amd64 (2.64.3-1) ... No schema files found: doing nothing. Setting up libc6-s390x-cross (2.30-2cross1) ... Setting up gcc-9-s390x-linux-gnu-base:amd64 (9.3.0-13cross1) ... Setting up libmagic1:amd64 (1:5.38-5) ... Setting up linux-libc-dev:s390x (5.6.14-2) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.38-5) ... Setting up libldap-common (2.4.50+dfsg-1) ... Setting up gcc-10-base:s390x (10.1.0-4) ... Setting up autotools-dev (20180224.1) ... Setting up linux-libc-dev-s390x-cross (5.4.19-1cross1) ... Setting up cross-config (2.6.15-3) ... Setting up cpp-9-s390x-linux-gnu (9.3.0-13cross1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up autopoint (0.19.8.1-10) ... Setting up icu-devtools (67.1-2) ... Setting up gcc-9-cross-base (9.3.0-13cross1) ... Setting up gcc-10-cross-base (10.1.0-3cross1) ... Setting up libitm1-s390x-cross (10.1.0-3cross1) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up libc6-dev-s390x-cross (2.30-2cross1) ... Setting up libcrypt-dev:amd64 (1:4.4.16-1) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libperl5.30:amd64 (5.30.3-4) ... Setting up libc6-dev:amd64 (2.30-8) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libgomp1-s390x-cross (10.1.0-3cross1) ... Setting up libxml2:amd64 (2.9.10+dfsg-5+b1) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up gcc-9-base:s390x (9.3.0-14) ... Setting up libstdc++-9-dev:amd64 (9.3.0-14) ... Setting up cpp-s390x-linux-gnu (4:9.2.1-3.1) ... Setting up libtool (2.4.6-14) ... Setting up libatomic1-s390x-cross (10.1.0-3cross1) ... Setting up m4 (1.4.18-4) ... Setting up perl (5.30.3-4) ... Setting up bsdmainutils (12.1.1+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libcroco3:amd64 (0.6.13-1) ... Setting up libgcc-s1-s390x-cross (10.1.0-3cross1) ... Setting up ucf (3.0043) ... Setting up g++-9 (9.3.0-14) ... Setting up libdpkg-perl (1.19.7) ... Setting up autoconf (2.69-11.1) ... Setting up g++ (4:9.2.1-3.1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-5) ... Setting up libsub-override-perl (0.09-2) ... Setting up automake (1:1.16.2-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-which-perl (1.23-1) ... Setting up gettext (0.19.8.1-10) ... Setting up libstdc++6-s390x-cross (10.1.0-3cross1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up libasan5-s390x-cross (9.3.0-13cross1) ... Setting up man-db (2.9.2-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libyaml-perl (1.30-1) ... Setting up dpkg-dev (1.19.7) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up pkg-config (0.29.2-1) ... Setting up build-essential (12.8) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up libfile-stripnondeterminism-perl (1.8.1-1) ... Setting up libubsan1-s390x-cross (10.1.0-3cross1) ... Setting up po-debconf (1.0.21) ... 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 libeigen3-dev (3.3.7-2) ... Setting up libxml-libxml-perl (2.0134+dfsg-2) ... 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 dh-strip-nondeterminism (1.8.1-1) ... Setting up libgcc-9-dev-s390x-cross (9.3.0-13cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up libstdc++-9-dev-s390x-cross (9.3.0-13cross1) ... Setting up gcc-9-s390x-linux-gnu (9.3.0-13cross1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up gcc-s390x-linux-gnu (4:9.2.1-3.1) ... Setting up g++-9-s390x-linux-gnu (9.3.0-13cross1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3) ... Setting up g++-s390x-linux-gnu (4:9.2.1-3.1) ... Setting up dpkg-cross (2.6.15-3) ... Setting up crossbuild-essential-s390x (12.8) ... Setting up libcrypt1:s390x (1:4.4.16-1) ... Setting up libgcc-s1:s390x (10.1.0-4) ... Setting up dh-autoreconf (19) ... Setting up libc6:s390x (2.30-8) ... Setting up libnettle7:s390x (3.5.1+really3.5.1-2) ... Setting up libcrypt-dev:s390x (1:4.4.16-1) ... Setting up libtasn1-6:s390x (4.16.0-2) ... Setting up r-mathlib:s390x (4.0.1-1) ... Setting up libc6-dev:s390x (2.30-8) ... Setting up libbz2-1.0:s390x (1.0.8-3) ... Setting up libdb5.3:s390x (5.3.28+dfsg1-0.6) ... Setting up libstdc++6:s390x (10.1.0-4) ... Setting up libitm1:s390x (10.1.0-4) ... Setting up libbz2-dev:s390x (1.0.8-3) ... Setting up libboost-program-options1.71.0:s390x (1.71.0-6+b2) ... Setting up libzstd1:s390x (1.4.5+dfsg-2) ... Setting up libkeyutils1:s390x (1.6.1-2) ... Setting up liblzma5:s390x (5.2.4-1+b1) ... Setting up libgpg-error0:s390x (1.38-1) ... Setting up libicu67:s390x (67.1-2) ... Setting up libgslcblas0:s390x (2.6+dfsg-2) ... Setting up libgsl25:s390x (2.6+dfsg-2) ... Setting up libssl1.1:s390x (1.1.1g-1) ... Setting up libbrotli1:s390x (1.0.7-6.1) ... Setting up libffi7:s390x (3.3-4) ... Setting up libnghttp2-14:s390x (1.41.0-2) ... Setting up libunistring2:s390x (0.9.10-4) ... Setting up libdeflate0:s390x (1.6-1) ... Setting up libgcrypt20:s390x (1.8.5-5) ... Setting up debhelper (13.1) ... Setting up zlib1g:s390x (1:1.2.11.dfsg-2) ... Setting up libidn2-0:s390x (2.3.0-1) ... Setting up libcom-err2:s390x (1.45.6-1) ... Setting up libgomp1:s390x (10.1.0-4) ... Setting up libboost-iostreams1.71.0:s390x (1.71.0-6+b2) ... Setting up libkrb5support0:s390x (1.17-10) ... Setting up libsasl2-modules-db:s390x (2.1.27+dfsg-2) ... Setting up libasan5:s390x (9.3.0-14) ... Setting up libblas3:s390x (3.9.0-2) ... update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode Setting up libgmp10:s390x (2:6.2.0+dfsg-6) ... Setting up libp11-kit0:s390x (0.23.20-1) ... Setting up libatomic1:s390x (10.1.0-4) ... Setting up libboost-regex1.71.0:s390x (1.71.0-6+b2) ... Setting up libk5crypto3:s390x (1.17-10) ... Setting up libsasl2-2:s390x (2.1.27+dfsg-2) ... Setting up liblzma-dev:s390x (5.2.4-1+b1) ... Setting up libubsan1:s390x (10.1.0-4) ... Setting up zlib1g-dev:s390x (1:1.2.11.dfsg-2) ... Setting up libssh2-1:s390x (1.8.0-2.1) ... Setting up libkrb5-3:s390x (1.17-10) ... Setting up libicu-dev:s390x (67.1-2) ... Setting up libblas-dev:s390x (3.9.0-2) ... update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so to provide /usr/lib/s390x-linux-gnu/libblas.so (libblas.so-s390x-linux-gnu) in auto mode Setting up libpsl5:s390x (0.21.0-1.1) ... Setting up libgsl-dev:s390x (2.6+dfsg-2) ... Setting up libhogweed5:s390x (3.5.1+really3.5.1-2) ... Setting up libgcc-9-dev:s390x (9.3.0-14) ... Setting up libgnutls30:s390x (3.6.14-2) ... Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libgssapi-krb5-2:s390x (1.17-10) ... Setting up libstdc++-9-dev:s390x (9.3.0-14) ... Setting up libboost1.71-dev:s390x (1.71.0-6+b2) ... Setting up libldap-2.4-2:s390x (2.4.50+dfsg-1) ... Setting up libcurl3-gnutls:s390x (7.68.0-1) ... Setting up libboost-regex1.71-dev:s390x (1.71.0-6+b2) ... Setting up libboost-iostreams1.71-dev:s390x (1.71.0-6+b2) ... Setting up libboost-program-options1.71-dev:s390x (1.71.0-6+b2) ... Setting up libhts3:s390x (1.10.2-3) ... Setting up libhts-dev:s390x (1.10.2-3) ... Setting up libboost-iostreams-dev:s390x (1.71.0.3) ... Setting up libboost-program-options-dev:s390x (1.71.0.3) ... Setting up sbuild-build-depends-main-dummy:s390x (0.invalid.0) ... Processing triggers for libc-bin (2.30-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (s390x included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-9-amd64 #1 SMP Debian 4.19.118-2 (2020-04-29) amd64 (x86_64) Toolchain package versions: binutils_2.34-8 dpkg-dev_1.19.7 g++-9_9.3.0-14 gcc-9_9.3.0-14 libc6-dev_2.30-8 libstdc++-9-dev_9.3.0-14 libstdc++-9-dev-s390x-cross_9.3.0-13cross1 libstdc++6_10.1.0-4 libstdc++6-s390x-cross_10.1.0-3cross1 linux-libc-dev_5.6.14-2 Package versions: adduser_3.118 apt_2.1.6 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-8 binutils-common_2.34-8 binutils-s390x-linux-gnu_2.34-8 binutils-x86-64-linux-gnu_2.34-8 bsdmainutils_12.1.1+b1 bsdutils_1:2.35.2-4 build-essential_12.8 bzip2_1.0.8-3 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-8_8.4.0-4 cpp-9_9.3.0-14 cpp-9-s390x-linux-gnu_9.3.0-13cross1 cpp-s390x-linux-gnu_4:9.2.1-3.1 cross-config_2.6.15-3 crossbuild-essential-s390x_12.8 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.1 debian-archive-keyring_2019.1 debianutils_4.11 dh-autoreconf_19 dh-strip-nondeterminism_1.8.1-1 diffutils_1:3.7-3 dpkg_1.19.7 dpkg-cross_2.6.15-3 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.2-4 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.3.0-14 g++-9-s390x-linux-gnu_9.3.0-13cross1 g++-s390x-linux-gnu_4:9.2.1-3.1 gcc_4:9.2.1-3.1 gcc-10-base_10.1.0-4 gcc-10-cross-base_10.1.0-3cross1 gcc-8-base_8.4.0-4 gcc-9_9.3.0-14 gcc-9-base_9.3.0-14 gcc-9-cross-base_9.3.0-13cross1 gcc-9-s390x-linux-gnu_9.3.0-13cross1 gcc-9-s390x-linux-gnu-base_9.3.0-13cross1 gcc-s390x-linux-gnu_4:9.2.1-3.1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 icu-devtools_67.1-2 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.1.6 libarchive-zip-perl_1.68-1 libasan5_9.3.0-14 libasan5-s390x-cross_9.3.0-13cross1 libatomic1_10.1.0-4 libatomic1-s390x-cross_10.1.0-3cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3+b1 libbinutils_2.34-8 libblas-dev_3.9.0-2 libblas3_3.9.0-2 libblkid1_2.35.2-4 libboost-iostreams-dev_1.71.0.3 libboost-iostreams1.71-dev_1.71.0-6+b2 libboost-iostreams1.71.0_1.71.0-6+b2 libboost-program-options-dev_1.71.0.3 libboost-program-options1.71-dev_1.71.0-6+b2 libboost-program-options1.71.0_1.71.0-6+b2 libboost-regex1.71-dev_1.71.0-6+b2 libboost-regex1.71.0_1.71.0-6+b2 libboost1.71-dev_1.71.0-6+b2 libbrotli1_1.0.7-6.1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-3 libbz2-dev_1.0.8-3 libc-bin_2.30-8 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qtltools, qtltools-example Architecture: any all Version: 1.2+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Dylan Aïssi Homepage: https://qtltools.github.io/qtltools/ Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/qtltools Vcs-Git: https://salsa.debian.org/med-team/qtltools.git Testsuite: autopkgtest Build-Depends: debhelper (>= 12~), libblas-dev, libboost-iostreams-dev, libboost-program-options-dev, libbz2-dev, libeigen3-dev, libgsl-dev, libhts-dev, r-mathlib, zlib1g-dev Package-List: qtltools deb science optional arch=any qtltools-example deb doc optional arch=all Checksums-Sha1: c55848d3ccaca5d1ae4def2ba687fdd7dc1e0d3f 104664 qtltools_1.2+dfsg.orig.tar.xz a2a0dde011198bc424459a69c5b2427c1743e67c 13557168 qtltools_1.2+dfsg-2.debian.tar.xz Checksums-Sha256: b9f14fabfd007b1f57edf1b08c45b2e6c2c260d656c40968c74ca186a3fc760d 104664 qtltools_1.2+dfsg.orig.tar.xz aa185087d33fc77e40252229d1c0a6b69817a13afb75d1149b857f6e0c0ccd14 13557168 qtltools_1.2+dfsg-2.debian.tar.xz Files: a85ce1d81e46dd195b2cad01977201f0 104664 qtltools_1.2+dfsg.orig.tar.xz 52c7fbbc83ff79364a90874c5b62c77a 13557168 qtltools_1.2+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAl4I0egACgkQPCZ2P2xn 5uJnvw//Z4TIdsDRWaOj7nRlxBH5jOYDmmEoAm/z9OagehDRV6Rmb03kovKKKPaa CNh0PVXU3ysMGvJ9tGhRcssCNJPUUN97V2sbzm3+9mqfYZCYdQYXhlR5ddLQLxA9 WkqQcAuD2qDiy+OqMddgzlfSWwEgzQvDmQyGWTSeCJMWAOEzQGKg31A7ru5a7LYW 1pct4ucXdySFkeKTLbDvZp8d0MKZzhGMx6FsGvrREfHhuWBEOJf68PHVq58rgCpp lPen7DKI/wXuo7WIl8/Tpw2bUL6lxoCX8tfPeanxtTwE8R5OVRpgX+YlQcKq8OzS +/pplV82teNF/9yYi4mAuHv1V2xNe2xUy+ocCdWVuhqAjHjZmnQ1bsNiRo3djKEV 8jm8mOV0UGsRq2CbHXuLacrelD+dGQ5Mlc6JnuzAKtJgNobbfkhNMVwsAj+o4Lza OYX4195WyidC4/kZAwqTLxehVIVIuZjiRFRHP9n5H2GzJxq0E8FULTGqMCKFROVh 5brPORfcmdWPje6rDzAfZpK1g1ecY1gbJLX1+25LVCAuA8Tb4gMxL960x5m9ysJO K/TYz3e5ljJRNK0w++eRY6KxQorrHQoh+EqJI2l0qrKxnmZKNBIhefaN7bKwMX+V j8Rx8coRCX2rtqMcqbJmH4yx6uCGRV8IpV4I5CVagVnMIH1iTRw= =WL0u -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sun Dec 29 16:18:48 2019 UTC gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./qtltools_1.2+dfsg-2.dsc dpkg-source: info: extracting qtltools in /<> dpkg-source: info: unpacking qtltools_1.2+dfsg.orig.tar.xz dpkg-source: info: unpacking qtltools_1.2+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Makefile_config.patch dpkg-source: info: applying Spelling_error.patch dpkg-source: info: applying reproducible_build.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.s390x DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-7927f80d-1833-4a2c-9115-eb4262af41b2 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -as390x -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package qtltools dpkg-buildpackage: info: source version 1.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-architecture: warning: specified GNU system type s390x-linux-gnu does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture s390x fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' rm -f debian/upstream.example/examples.tar.xz dh_auto_clean make -j1 clean make[2]: Entering directory '/<>' rm -f obj/*.o bin/QTLtools make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>' mkdir -p /<>/obj/ mkdir -p /<>/bin/ dh_auto_build make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=s390x-linux-gnu-pkg-config CXX=s390x-linux-gnu-g\+\+ CC=s390x-linux-gnu-gcc make[2]: Entering directory '/<>' s390x-linux-gnu-g++ -o obj/QTLtools.o -c src/QTLtools.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/data.o -c src/common/data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/ase_main.o -c src/mode_ase/ase_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/ase_read_genotypes.o -c src/mode_ase/ase_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_ase/ase_read_genotypes.cpp: In member function ‘void ase_data::readGenotypes(std::string, std::string)’: src/mode_ase/ase_read_genotypes.cpp:42:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 42 | case not_bgzf: vrb.error("Not compressed with bgzip"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_ase/ase_read_genotypes.cpp:43:3: note: here 43 | case idx_load_failed: vrb.error("Impossible to load index file"); | ^~~~ src/mode_ase/ase_read_genotypes.cpp:43:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 43 | case idx_load_failed: vrb.error("Impossible to load index file"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_ase/ase_read_genotypes.cpp:44:3: note: here 44 | case file_type_error: vrb.error("Unrecognized file format"); | ^~~~ src/mode_ase/ase_read_genotypes.cpp:44:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 44 | case file_type_error: vrb.error("Unrecognized file format"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_ase/ase_read_genotypes.cpp:45:3: note: here 45 | default: vrb.error("Unknown error when opening"); | ^~~~~~~ s390x-linux-gnu-g++ -o obj/ase_read_sequences.o -c src/mode_ase/ase_read_sequences.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_ase/ase_read_sequences.cpp: In member function ‘void ase_data::readSequences(std::string, std::string)’: src/mode_ase/ase_read_sequences.cpp:83:18: warning: ignoring return value of ‘int bcf_hdr_write(htsFile*, bcf_hdr_t*)’, declared with attribute warn_unused_result [-Wunused-result] 83 | bcf_hdr_write(bcf_fd, bcf_hdr); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ s390x-linux-gnu-g++ -o obj/bamstat_main.o -c src/mode_bamstat/bamstat_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/bamstat_read_annotations.o -c src/mode_bamstat/bamstat_read_annotations.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/bamstat_read_bam.o -c src/mode_bamstat/bamstat_read_bam.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/bamstat_write_output.o -c src/mode_bamstat/bamstat_write_output.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_chunking.o -c src/mode_cis/cis_chunking.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_collapse_phenotypes.o -c src/mode_cis/cis_collapse_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_conditionnal_pass.o -c src/mode_cis/cis_conditionnal_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_cis/cis_conditionnal_pass.cpp:16: src/mode_cis/cis_data.h: In member function ‘double cis_data::getCorrelation(std::vector&, std::vector&)’: src/mode_cis/cis_data.h:149:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_cis/cis_data.h:150:2: note: here 150 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_cis/cis_data.h:150:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 150 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_cis/cis_data.h:151:2: note: here 151 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/cis_initilization.o -c src/mode_cis/cis_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_learn_beta.o -c src/mode_cis/cis_learn_beta.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_learn_dof.o -c src/mode_cis/cis_learn_dof.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_main.o -c src/mode_cis/cis_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_management.o -c src/mode_cis/cis_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_nominal_pass.o -c src/mode_cis/cis_nominal_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_cis/cis_nominal_pass.cpp:16: src/mode_cis/cis_data.h: In member function ‘double cis_data::getCorrelation(std::vector&, std::vector&)’: src/mode_cis/cis_data.h:149:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_cis/cis_data.h:150:2: note: here 150 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_cis/cis_data.h:150:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 150 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_cis/cis_data.h:151:2: note: here 151 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/cis_permutation_pass.o -c src/mode_cis/cis_permutation_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_cis/cis_permutation_pass.cpp:16: src/mode_cis/cis_data.h: In member function ‘double cis_data::getCorrelation(std::vector&, std::vector&)’: src/mode_cis/cis_data.h:149:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 149 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_cis/cis_data.h:150:2: note: here 150 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_cis/cis_data.h:150:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 150 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_cis/cis_data.h:151:2: note: here 151 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/cis_read_covariates.o -c src/mode_cis/cis_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_read_genotypes.o -c src/mode_cis/cis_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_read_phenotypes.o -c src/mode_cis/cis_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/cis_read_thresholds.o -c src/mode_cis/cis_read_thresholds.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/correct_main.o -c src/mode_correct/correct_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/correct_management.o -c src/mode_correct/correct_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/correct_processing.o -c src/mode_correct/correct_processing.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_correct/correct_processing.cpp: In member function ‘void correct_data::processVCF(std::string, std::string)’: src/mode_correct/correct_processing.cpp:124:15: warning: ignoring return value of ‘int bcf_hdr_write(htsFile*, bcf_hdr_t*)’, declared with attribute warn_unused_result [-Wunused-result] 124 | bcf_hdr_write(fp, hdr_new); | ~~~~~~~~~~~~~^~~~~~~~~~~~~ s390x-linux-gnu-g++ -o obj/correct_read_covariates.o -c src/mode_correct/correct_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_correct/correct_read_covariates.cpp: In member function ‘void correct_data::readQTLCovariates(std::string, std::string)’: src/mode_correct/correct_read_covariates.cpp:107:59: warning: unused variable ‘nsl’ [-Wunused-variable] 107 | int ngt, ngt_arr = 0, nds, nds_arr = 0, * gt_arr = NULL, nsl, nsl_arr = 0, * sl_arr = NULL; | ^~~ src/mode_correct/correct_read_covariates.cpp:107:64: warning: unused variable ‘nsl_arr’ [-Wunused-variable] 107 | int ngt, ngt_arr = 0, nds, nds_arr = 0, * gt_arr = NULL, nsl, nsl_arr = 0, * sl_arr = NULL; | ^~~~~~~ src/mode_correct/correct_read_covariates.cpp:107:79: warning: unused variable ‘sl_arr’ [-Wunused-variable] 107 | int ngt, ngt_arr = 0, nds, nds_arr = 0, * gt_arr = NULL, nsl, nsl_arr = 0, * sl_arr = NULL; | ^~~~~~ s390x-linux-gnu-g++ -o obj/extract_main.o -c src/mode_extract/extract_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/extract_managment.o -c src/mode_extract/extract_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/extract_read_data.o -c src/mode_extract/extract_read_data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_extract/extract_read_data.cpp: In member function ‘void extract_data::readVCF(std::string)’: src/mode_extract/extract_read_data.cpp:101:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 101 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_extract/extract_read_data.cpp:102:3: note: here 102 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_extract/extract_read_data.cpp:102:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 102 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_extract/extract_read_data.cpp:103:3: note: here 103 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_extract/extract_read_data.cpp:103:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 103 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_extract/extract_read_data.cpp:104:3: note: here 104 | default : vrb.error("Unknown error!"); | ^~~~~~~ s390x-linux-gnu-g++ -o obj/extract_write.o -c src/mode_extract/extract_write.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fdensity_main.o -c src/mode_fdensity/fdensity_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fdensity_process.o -c src/mode_fdensity/fdensity_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fdensity_read_annotation.o -c src/mode_fdensity/fdensity_read_annotation.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fdensity_read_qtl.o -c src/mode_fdensity/fdensity_read_qtl.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fenrich_main.o -c src/mode_fenrich/fenrich_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fenrich_management.o -c src/mode_fenrich/fenrich_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fenrich_process.o -c src/mode_fenrich/fenrich_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fenrich_read_annotation.o -c src/mode_fenrich/fenrich_read_annotation.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fenrich_read_qtl.o -c src/mode_fenrich/fenrich_read_qtl.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/fenrich_read_tss.o -c src/mode_fenrich/fenrich_read_tss.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/genrich_binning_process.o -c src/mode_genrich/genrich_binning_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/genrich_main.o -c src/mode_genrich/genrich_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/genrich_process.o -c src/mode_genrich/genrich_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/genrich_read_auxillliary_data.o -c src/mode_genrich/genrich_read_auxillliary_data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/genrich_read_phenotypes.o -c src/mode_genrich/genrich_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/genrich_read_reference_genotypes.o -c src/mode_genrich/genrich_read_reference_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_genrich/genrich_read_reference_genotypes.cpp: In member function ‘void genrich_data::readReferenceGenotypes(std::string)’: src/mode_genrich/genrich_read_reference_genotypes.cpp:26:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 26 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_genrich/genrich_read_reference_genotypes.cpp:27:3: note: here 27 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_genrich/genrich_read_reference_genotypes.cpp:27:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 27 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_genrich/genrich_read_reference_genotypes.cpp:28:3: note: here 28 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_genrich/genrich_read_reference_genotypes.cpp:28:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 28 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_genrich/genrich_read_reference_genotypes.cpp:29:3: note: here 29 | default : vrb.error("Unknown error!"); | ^~~~~~~ s390x-linux-gnu-g++ -o obj/genrich_routines.o -c src/mode_genrich/genrich_routines.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/gwas_analysis_pass.o -c src/mode_gwas/gwas_analysis_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_gwas/gwas_analysis_pass.cpp: In member function ‘void gwas_data::runGwasPassOnVCF(std::string, std::string)’: src/mode_gwas/gwas_analysis_pass.cpp:28:21: warning: ignoring return value of ‘int bcf_hdr_set_samples(bcf_hdr_t*, const char*, int)’, declared with attribute warn_unused_result [-Wunused-result] 28 | bcf_hdr_set_samples(hdr, concat_id.c_str(), 0); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from src/mode_gwas/gwas_analysis_pass.cpp:16: src/mode_gwas/gwas_data.h: In member function ‘double gwas_data::fastCorrelation(std::vector&, float*)’: src/mode_gwas/gwas_data.h:93:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 93 | case 3: sum0 += P[i+2] * G[i+2]; | ~~~~~^~~~~~~~~~~~~~~~~~ src/mode_gwas/gwas_data.h:94:2: note: here 94 | case 2: sum0 += P[i+1] * G[i+1]; | ^~~~ src/mode_gwas/gwas_data.h:94:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 94 | case 2: sum0 += P[i+1] * G[i+1]; | ~~~~~^~~~~~~~~~~~~~~~~~ src/mode_gwas/gwas_data.h:95:2: note: here 95 | case 1: sum0 += P[i+0] * G[i+0]; | ^~~~ src/mode_gwas/gwas_data.h: In member function ‘double gwas_data::fastCorrelation(std::vector&, std::vector&)’: src/mode_gwas/gwas_data.h:117:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 117 | case 3: sum0 += P[i+2] * G[i+2]; src/mode_gwas/gwas_data.h:118:2: note: here 118 | case 2: sum0 += P[i+1] * G[i+1]; | ^~~~ src/mode_gwas/gwas_data.h:118:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 118 | case 2: sum0 += P[i+1] * G[i+1]; src/mode_gwas/gwas_data.h:119:2: note: here 119 | case 1: sum0 += P[i+0] * G[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/gwas_initilization.o -c src/mode_gwas/gwas_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/gwas_main.o -c src/mode_gwas/gwas_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/gwas_managment.o -c src/mode_gwas/gwas_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/gwas_read_covariates.o -c src/mode_gwas/gwas_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/gwas_read_phenotypes.o -c src/mode_gwas/gwas_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/match_main.o -c src/mode_match/match_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/match_managment.o -c src/mode_match/match_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/match_process.o -c src/mode_match/match_process.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/match_read_genotypes.o -c src/mode_match/match_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_match/match_read_genotypes.cpp: In member function ‘void match_data::readGenotypes(std::string, std::string)’: src/mode_match/match_read_genotypes.cpp:40:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 40 | case not_bgzf: vrb.error("Not compressed with bgzip"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_match/match_read_genotypes.cpp:41:3: note: here 41 | case idx_load_failed: vrb.error("Impossible to load index file"); | ^~~~ src/mode_match/match_read_genotypes.cpp:41:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 41 | case idx_load_failed: vrb.error("Impossible to load index file"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_match/match_read_genotypes.cpp:42:3: note: here 42 | case file_type_error: vrb.error("Unrecognized file format"); | ^~~~ src/mode_match/match_read_genotypes.cpp:42:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 42 | case file_type_error: vrb.error("Unrecognized file format"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_match/match_read_genotypes.cpp:43:3: note: here 43 | default: vrb.error("Unknown error when opening"); | ^~~~~~~ s390x-linux-gnu-g++ -o obj/match_read_sequences.o -c src/mode_match/match_read_sequences.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/pca_main.o -c src/mode_pca/pca_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/pca_management.o -c src/mode_pca/pca_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/pca_pca.o -c src/mode_pca/pca_pca.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/pca_read_data.o -c src/mode_pca/pca_read_data.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_pca/pca_read_data.cpp: In member function ‘void pca_data::readDataVCF(std::string)’: src/mode_pca/pca_read_data.cpp:47:37: warning: this statement may fall through [-Wimplicit-fallthrough=] 47 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_pca/pca_read_data.cpp:48:13: note: here 48 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_pca/pca_read_data.cpp:48:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 48 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_pca/pca_read_data.cpp:49:13: note: here 49 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_pca/pca_read_data.cpp:49:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 49 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_pca/pca_read_data.cpp:50:13: note: here 50 | default : vrb.error("Unknown error!"); | ^~~~~~~ s390x-linux-gnu-g++ -o obj/quan_main.o -c src/mode_quan/quan_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/quan_readBAM.o -c src/mode_quan/quan_readBAM.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/quan_readGTF.o -c src/mode_quan/quan_readGTF.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/quan_writeResults.o -c src/mode_quan/quan_writeResults.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/quan_xxhash.o -c src/mode_quan/quan_xxhash.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rep_initilization.o -c src/mode_rep/rep_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rep_main.o -c src/mode_rep/rep_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rep_management.o -c src/mode_rep/rep_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rep_nominal_pass.o -c src/mode_rep/rep_nominal_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_rep/rep_nominal_pass.cpp:16: src/mode_rep/rep_data.h: In member function ‘double rep_data::getCorrelation(std::vector&, std::vector&)’: src/mode_rep/rep_data.h:121:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 121 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_rep/rep_data.h:122:2: note: here 122 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_rep/rep_data.h:122:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 122 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_rep/rep_data.h:123:2: note: here 123 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/rep_read_covariates.o -c src/mode_rep/rep_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rep_read_genotypes.o -c src/mode_rep/rep_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rep_read_phenotypes.o -c src/mode_rep/rep_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rep_read_qtls.o -c src/mode_rep/rep_read_qtls.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_chunking.o -c src/mode_rtc/rtc_chunking.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_collapse_phenotypes.o -c src/mode_rtc/rtc_collapse_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_common.o -c src/mode_rtc/rtc_common.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_rtc/rtc_common.cpp:16: src/mode_rtc/rtc_data.h: In member function ‘double rtc_data::getCorrelation(std::vector&, std::vector&, int)’: src/mode_rtc/rtc_data.h:300:22: warning: this statement may fall through [-Wimplicit-fallthrough=] 300 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_rtc/rtc_data.h:301:9: note: here 301 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_rtc/rtc_data.h:301:22: warning: this statement may fall through [-Wimplicit-fallthrough=] 301 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_rtc/rtc_data.h:302:9: note: here 302 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ src/mode_rtc/rtc_data.h: In member function ‘double rtc_data::getCorrelation(std::vector&, std::vector&)’: src/mode_rtc/rtc_data.h:276:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 276 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_rtc/rtc_data.h:277:2: note: here 277 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_rtc/rtc_data.h:277:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 277 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_rtc/rtc_data.h:278:2: note: here 278 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/rtc_gwas_cis.o -c src/mode_rtc/rtc_gwas_cis.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_gwas_trans.o -c src/mode_rtc/rtc_gwas_trans.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_initilization.o -c src/mode_rtc/rtc_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_main.o -c src/mode_rtc/rtc_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_management.o -c src/mode_rtc/rtc_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_rtc/rtc_management.cpp:16: src/mode_rtc/rtc_data.h: In member function ‘double rtc_data::getCorrelation(std::vector&, std::vector&)’: src/mode_rtc/rtc_data.h:276:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 276 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_rtc/rtc_data.h:277:2: note: here 277 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_rtc/rtc_data.h:277:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 277 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_rtc/rtc_data.h:278:2: note: here 278 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/rtc_mergeQTL_cis.o -c src/mode_rtc/rtc_mergeQTL_cis.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_mergeQTL_trans.o -c src/mode_rtc/rtc_mergeQTL_trans.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_read_covariates.o -c src/mode_rtc/rtc_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_read_genotypes.o -c src/mode_rtc/rtc_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_rtc/rtc_read_genotypes.cpp: In member function ‘void rtc_data::readGenotypesVCF(std::string)’: src/mode_rtc/rtc_read_genotypes.cpp:81:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 81 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:82:3: note: here 82 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_rtc/rtc_read_genotypes.cpp:82:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 82 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:83:3: note: here 83 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_rtc/rtc_read_genotypes.cpp:83:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 83 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:84:3: note: here 84 | default : vrb.error("Unknown error!"); | ^~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp: In member function ‘int rtc_data::readGenotypesVCFStats(std::string, std::string&, std::vector >&)’: src/mode_rtc/rtc_read_genotypes.cpp:263:37: warning: this statement may fall through [-Wimplicit-fallthrough=] 263 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:264:13: note: here 264 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_rtc/rtc_read_genotypes.cpp:264:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 264 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:265:13: note: here 265 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_rtc/rtc_read_genotypes.cpp:265:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 265 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:266:13: note: here 266 | default : vrb.error("Unknown error!"); | ^~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp: In member function ‘void rtc_data::scanGenotypesVCF(std::string)’: src/mode_rtc/rtc_read_genotypes.cpp:330:37: warning: this statement may fall through [-Wimplicit-fallthrough=] 330 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:331:13: note: here 331 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_rtc/rtc_read_genotypes.cpp:331:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 331 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:332:13: note: here 332 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_rtc/rtc_read_genotypes.cpp:332:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 332 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_rtc/rtc_read_genotypes.cpp:333:13: note: here 333 | default : vrb.error("Unknown error!"); | ^~~~~~~ s390x-linux-gnu-g++ -o obj/rtc_read_get_hotspots.o -c src/mode_rtc/rtc_read_get_hotspots.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_read_phenotypes.o -c src/mode_rtc/rtc_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/rtc_sampling.o -c src/mode_rtc/rtc_sampling.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_rtc/rtc_sampling.cpp:16: src/mode_rtc/rtc_data.h: In member function ‘double rtc_data::getCorrelation(std::vector&, std::vector&, int)’: src/mode_rtc/rtc_data.h:300:22: warning: this statement may fall through [-Wimplicit-fallthrough=] 300 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_rtc/rtc_data.h:301:9: note: here 301 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_rtc/rtc_data.h:301:22: warning: this statement may fall through [-Wimplicit-fallthrough=] 301 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_rtc/rtc_data.h:302:9: note: here 302 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ src/mode_rtc/rtc_data.h: In member function ‘double rtc_data::getCorrelation(std::vector&, std::vector&)’: src/mode_rtc/rtc_data.h:276:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 276 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_rtc/rtc_data.h:277:2: note: here 277 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_rtc/rtc_data.h:277:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 277 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_rtc/rtc_data.h:278:2: note: here 278 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/trans_adjust.o -c src/mode_trans/trans_adjust.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_analysis_pass.o -c src/mode_trans/trans_analysis_pass.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_trans/trans_analysis_pass.cpp:16: src/mode_trans/trans_data.h: In member function ‘double trans_data::fastCorrelation(std::vector&, float*)’: src/mode_trans/trans_data.h:122:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 122 | case 3: sum0 += P[i+2] * G[i+2]; | ~~~~~^~~~~~~~~~~~~~~~~~ src/mode_trans/trans_data.h:123:2: note: here 123 | case 2: sum0 += P[i+1] * G[i+1]; | ^~~~ src/mode_trans/trans_data.h:123:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 123 | case 2: sum0 += P[i+1] * G[i+1]; | ~~~~~^~~~~~~~~~~~~~~~~~ src/mode_trans/trans_data.h:124:2: note: here 124 | case 1: sum0 += P[i+0] * G[i+0]; | ^~~~ s390x-linux-gnu-g++ -o obj/trans_chunking.o -c src/mode_trans/trans_chunking.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_initilization.o -c src/mode_trans/trans_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_learn_beta.o -c src/mode_trans/trans_learn_beta.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_main.o -c src/mode_trans/trans_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_managment.o -c src/mode_trans/trans_managment.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_read_covariates.o -c src/mode_trans/trans_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_read_phenotypes.o -c src/mode_trans/trans_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/trans_read_samples.o -c src/mode_trans/trans_read_samples.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/union_initilization.o -c src/mode_union/union_initilization.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/union_main.o -c src/mode_union/union_main.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/union_management.o -c src/mode_union/union_management.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/union_read_covariates.o -c src/mode_union/union_read_covariates.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/union_read_genotypes.o -c src/mode_union/union_read_genotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib src/mode_union/union_read_genotypes.cpp: In member function ‘void union_data::readGenotypesVCF(std::string, std::string)’: src/mode_union/union_read_genotypes.cpp:76:27: warning: this statement may fall through [-Wimplicit-fallthrough=] 76 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_union/union_read_genotypes.cpp:77:3: note: here 77 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_union/union_read_genotypes.cpp:77:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 77 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_union/union_read_genotypes.cpp:78:3: note: here 78 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_union/union_read_genotypes.cpp:78:34: warning: this statement may fall through [-Wimplicit-fallthrough=] 78 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_union/union_read_genotypes.cpp:79:3: note: here 79 | default : vrb.error("Unknown error!"); | ^~~~~~~ src/mode_union/union_read_genotypes.cpp: In member function ‘void union_data::scanGenotypesVCF(std::string)’: src/mode_union/union_read_genotypes.cpp:248:37: warning: this statement may fall through [-Wimplicit-fallthrough=] 248 | case not_bgzf: vrb.error("File not compressed with bgzip!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_union/union_read_genotypes.cpp:249:13: note: here 249 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ^~~~ src/mode_union/union_read_genotypes.cpp:249:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 249 | case idx_load_failed: vrb.error("Impossible to load index file!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_union/union_read_genotypes.cpp:250:13: note: here 250 | case file_type_error: vrb.error("File format not detected by htslib!"); | ^~~~ src/mode_union/union_read_genotypes.cpp:250:44: warning: this statement may fall through [-Wimplicit-fallthrough=] 250 | case file_type_error: vrb.error("File format not detected by htslib!"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src/mode_union/union_read_genotypes.cpp:251:13: note: here 251 | default : vrb.error("Unknown error!"); | ^~~~~~~ s390x-linux-gnu-g++ -o obj/union_read_get_hotspots.o -c src/mode_union/union_read_get_hotspots.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/union_read_phenotypes.o -c src/mode_union/union_read_phenotypes.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib s390x-linux-gnu-g++ -o obj/union_union.o -c src/mode_union/union_union.cpp -O3 -Wall -Wextra -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated -Wno-unused-parameter -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/eigen3 -Ilib/OTools -Ilib In file included from src/mode_union/union_union.cpp:16: src/mode_union/union_data.h: In member function ‘double union_data::getCorrelation(std::vector&, std::vector&)’: src/mode_union/union_data.h:189:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 189 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/mode_union/union_data.h:190:2: note: here 190 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/mode_union/union_data.h:190:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 190 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/mode_union/union_data.h:191:2: note: here 191 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ s390x-linux-gnu-g++ obj/QTLtools.o obj/data.o obj/ase_main.o obj/ase_read_genotypes.o obj/ase_read_sequences.o obj/bamstat_main.o obj/bamstat_read_annotations.o obj/bamstat_read_bam.o obj/bamstat_write_output.o obj/cis_chunking.o obj/cis_collapse_phenotypes.o obj/cis_conditionnal_pass.o obj/cis_initilization.o obj/cis_learn_beta.o obj/cis_learn_dof.o obj/cis_main.o obj/cis_management.o obj/cis_nominal_pass.o obj/cis_permutation_pass.o obj/cis_read_covariates.o obj/cis_read_genotypes.o obj/cis_read_phenotypes.o obj/cis_read_thresholds.o obj/correct_main.o obj/correct_management.o obj/correct_processing.o obj/correct_read_covariates.o obj/extract_main.o obj/extract_managment.o obj/extract_read_data.o obj/extract_write.o obj/fdensity_main.o obj/fdensity_process.o obj/fdensity_read_annotation.o obj/fdensity_read_qtl.o obj/fenrich_main.o obj/fenrich_management.o obj/fenrich_process.o obj/fenrich_read_annotation.o obj/fenrich_read_qtl.o obj/fenrich_read_tss.o obj/genrich_binning_process.o obj/genrich_main.o obj/genrich_process.o obj/genrich_read_auxillliary_data.o obj/genrich_read_phenotypes.o obj/genrich_read_reference_genotypes.o obj/genrich_routines.o obj/gwas_analysis_pass.o obj/gwas_initilization.o obj/gwas_main.o obj/gwas_managment.o obj/gwas_read_covariates.o obj/gwas_read_phenotypes.o obj/match_main.o obj/match_managment.o obj/match_process.o obj/match_read_genotypes.o obj/match_read_sequences.o obj/pca_main.o obj/pca_management.o obj/pca_pca.o obj/pca_read_data.o obj/quan_main.o obj/quan_readBAM.o obj/quan_readGTF.o obj/quan_writeResults.o obj/quan_xxhash.o obj/rep_initilization.o obj/rep_main.o obj/rep_management.o obj/rep_nominal_pass.o obj/rep_read_covariates.o obj/rep_read_genotypes.o obj/rep_read_phenotypes.o obj/rep_read_qtls.o obj/rtc_chunking.o obj/rtc_collapse_phenotypes.o obj/rtc_common.o obj/rtc_gwas_cis.o obj/rtc_gwas_trans.o obj/rtc_initilization.o obj/rtc_main.o obj/rtc_management.o obj/rtc_mergeQTL_cis.o obj/rtc_mergeQTL_trans.o obj/rtc_read_covariates.o obj/rtc_read_genotypes.o obj/rtc_read_get_hotspots.o obj/rtc_read_phenotypes.o obj/rtc_sampling.o obj/trans_adjust.o obj/trans_analysis_pass.o obj/trans_chunking.o obj/trans_initilization.o obj/trans_learn_beta.o obj/trans_main.o obj/trans_managment.o obj/trans_read_covariates.o obj/trans_read_phenotypes.o obj/trans_read_samples.o obj/union_initilization.o obj/union_main.o obj/union_management.o obj/union_read_covariates.o obj/union_read_genotypes.o obj/union_read_get_hotspots.o obj/union_read_phenotypes.o obj/union_union.o -lRmath -lhts -lboost_iostreams -lboost_program_options -o bin/QTLtools -lz -lgsl -lblas -lbz2 -lm -lpthread -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a debian/rules override_dh_install make[1]: Entering directory '/<>' cd debian/upstream.example && find -type f | LC_ALL=C sort | tar -T - --sort=name --mode=go=rX,u+rw,a-s --owner=root --group=root --numeric-owner -Jcvf examples.tar.xz ./genes.50percent.chr22.bed.gz ./genes.50percent.chr22.bed.gz.tbi ./genes.covariates.pc50.txt.gz ./genes.simulated.chr22.bed.gz ./genes.simulated.chr22.bed.gz.tbi ./genotypes.chr22.vcf.gz ./genotypes.chr22.vcf.gz.tbi dh_install make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/qtltools/usr/bin/QTLtools was not linked against libblas.so.3 (it uses none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'qtltools' in '../qtltools_1.2+dfsg-2_s390x.deb'. dpkg-deb: building package 'qtltools-dbgsym' in '../qtltools-dbgsym_1.2+dfsg-2_s390x.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../qtltools_1.2+dfsg-2_s390x.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 2020-06-22T04:47:06Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ qtltools_1.2+dfsg-2_s390x.changes: ---------------------------------- Format: 1.8 Date: Wed, 25 Dec 2019 22:27:16 +0100 Source: qtltools Binary: qtltools qtltools-dbgsym Built-For-Profiles: cross nocheck Architecture: s390x Version: 1.2+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: qtltools - Tool set for molecular QTL discovery and analysis Changes: qtltools (1.2+dfsg-2) unstable; urgency=medium . * Team upload. * debian/rules: on mipsel, skip debug info to fit into 4 GB of memory Checksums-Sha1: 8a4941c85db63a34bf40c6f67b72f1322907bf8f 53862228 qtltools-dbgsym_1.2+dfsg-2_s390x.deb bf0ccf347582a79ccebe33c717a232977d33dd24 6085 qtltools_1.2+dfsg-2_s390x.buildinfo 534757697ebbc58ec6fac40b876c8b20c08c426b 607128 qtltools_1.2+dfsg-2_s390x.deb Checksums-Sha256: 9712c75a2625ad423fdcf4d6cffabc3092f5f7f5edfb3355d0f12598905358d5 53862228 qtltools-dbgsym_1.2+dfsg-2_s390x.deb 14627c0ab4800485accd15c1e414cf0109274e6f5d38d41d39f5c8d3cd2e52f1 6085 qtltools_1.2+dfsg-2_s390x.buildinfo 49f6b2cfa106f873ea48c27f3d952ac224f09ca15748d8dfc4456edc700a6606 607128 qtltools_1.2+dfsg-2_s390x.deb Files: 60ea4ae74a3f6402fda8d604e8a90c8e 53862228 debug optional qtltools-dbgsym_1.2+dfsg-2_s390x.deb e464e265ab6771206399814729a007e4 6085 science optional qtltools_1.2+dfsg-2_s390x.buildinfo c56855d8c500bedfba6d873238140ec8 607128 science optional qtltools_1.2+dfsg-2_s390x.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: qtltools Binary: qtltools qtltools-example Architecture: s390x Version: 1.2+dfsg-2 Checksums-Md5: 60ea4ae74a3f6402fda8d604e8a90c8e 53862228 qtltools-dbgsym_1.2+dfsg-2_s390x.deb c56855d8c500bedfba6d873238140ec8 607128 qtltools_1.2+dfsg-2_s390x.deb Checksums-Sha1: 8a4941c85db63a34bf40c6f67b72f1322907bf8f 53862228 qtltools-dbgsym_1.2+dfsg-2_s390x.deb 534757697ebbc58ec6fac40b876c8b20c08c426b 607128 qtltools_1.2+dfsg-2_s390x.deb Checksums-Sha256: 9712c75a2625ad423fdcf4d6cffabc3092f5f7f5edfb3355d0f12598905358d5 53862228 qtltools-dbgsym_1.2+dfsg-2_s390x.deb 49f6b2cfa106f873ea48c27f3d952ac224f09ca15748d8dfc4456edc700a6606 607128 qtltools_1.2+dfsg-2_s390x.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Mon, 22 Jun 2020 04:47:05 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.2-1), autopoint (= 0.19.8.1-10), autotools-dev (= 20180224.1), base-files (= 11), base-passwd (= 3.5.47), bash (= 5.0-6), binutils (= 2.34-8), binutils-common (= 2.34-8), binutils-x86-64-linux-gnu (= 2.34-8), bsdmainutils (= 12.1.1+b1), bsdutils (= 1:2.35.2-4), build-essential (= 12.8), bzip2 (= 1.0.8-3), coreutils (= 8.30-3+b1), cpp (= 4:9.2.1-3.1), cpp-9 (= 9.3.0-14), dash (= 0.5.10.2-7), debconf (= 1.5.74), debhelper (= 13.1), debianutils (= 4.11), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.8.1-1), diffutils (= 1:3.7-3), dpkg (= 1.19.7), dpkg-dev (= 1.19.7), dwz (= 0.13-5), file (= 1:5.38-5), findutils (= 4.7.0-1), g++ (= 4:9.2.1-3.1), g++-9 (= 9.3.0-14), gcc (= 4:9.2.1-3.1), gcc-10-base (= 10.1.0-4), gcc-9 (= 9.3.0-14), gcc-9-base (= 9.3.0-14), gettext (= 0.19.8.1-10), gettext-base (= 0.19.8.1-10), grep (= 3.4-1), groff-base (= 1.22.4-5), gzip (= 1.10-2), hostname (= 3.23), icu-devtools (= 67.1-2), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-8), libarchive-zip-perl (= 1.68-1), libasan5 (= 9.3.0-14), libatomic1 (= 10.1.0-4), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3), libaudit1 (= 1:2.8.5-3+b1), libbinutils (= 2.34-8), libblas-dev (= 3.9.0-2), libblas3 (= 3.9.0-2), libblkid1 (= 2.35.2-4), libboost-iostreams-dev (= 1.71.0.3), libboost-iostreams1.71-dev (= 1.71.0-6+b2), libboost-iostreams1.71.0 (= 1.71.0-6+b2), libboost-program-options-dev (= 1.71.0.3), libboost-program-options1.71-dev (= 1.71.0-6+b2), libboost-program-options1.71.0 (= 1.71.0-6+b2), libboost-regex1.71-dev (= 1.71.0-6+b2), libboost-regex1.71.0 (= 1.71.0-6+b2), libboost1.71-dev (= 1.71.0-6+b2), libbrotli1 (= 1.0.7-6.1), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-3), libbz2-dev (= 1.0.8-3), libc-bin (= 2.30-8), libc-dev-bin (= 2.30-8), libc6 (= 2.30-8), libc6-dev (= 2.30-8), libcap-ng0 (= 0.7.9-2.2), libcc1-0 (= 10.1.0-4), libcom-err2 (= 1.45.6-1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.16-1), libcrypt1 (= 1:4.4.16-1), libctf-nobfd0 (= 2.34-8), libctf0 (= 2.34-8), libcurl3-gnutls (= 7.68.0-1), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.252), libdebhelper-perl (= 13.1), libdeflate0 (= 1.6-1), libdpkg-perl (= 1.19.7), libeigen3-dev (= 3.3.7-2), libelf1 (= 0.176-1.1), libffi7 (= 3.3-4), libfile-stripnondeterminism-perl (= 1.8.1-1), libgcc-9-dev (= 9.3.0-14), libgcc-s1 (= 10.1.0-4), libgcrypt20 (= 1.8.5-5), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libglib2.0-0 (= 2.64.3-1), libgmp10 (= 2:6.2.0+dfsg-6), libgnutls30 (= 3.6.14-2), libgomp1 (= 10.1.0-4), libgpg-error0 (= 1.38-1), libgsl-dev (= 2.6+dfsg-2), libgsl25 (= 2.6+dfsg-2), libgslcblas0 (= 2.6+dfsg-2), libgssapi-krb5-2 (= 1.17-10), libhogweed5 (= 3.5.1+really3.5.1-2), libhts-dev (= 1.10.2-3), libhts3 (= 1.10.2-3), libicu-dev (= 67.1-2), libicu67 (= 67.1-2), libidn2-0 (= 2.3.0-1), libisl22 (= 0.22.1-1), libitm1 (= 10.1.0-4), libk5crypto3 (= 1.17-10), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.17-10), libkrb5support0 (= 1.17-10), libldap-2.4-2 (= 2.4.50+dfsg-1), libldap-common (= 2.4.50+dfsg-1), liblsan0 (= 10.1.0-4), liblz4-1 (= 1.9.2-2), liblzma-dev (= 5.2.4-1+b1), liblzma5 (= 5.2.4-1+b1), libmagic-mgc (= 1:5.38-5), libmagic1 (= 1:5.38-5), libmount1 (= 2.35.2-4), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), libnettle7 (= 3.5.1+really3.5.1-2), libnghttp2-14 (= 1.41.0-2), libp11-kit0 (= 0.23.20-1), libpam-modules (= 1.3.1-5), libpam-modules-bin (= 1.3.1-5), libpam-runtime (= 1.3.1-5), libpam0g (= 1.3.1-5), libpcre2-8-0 (= 10.34-7), libpcre3 (= 2:8.39-13), libperl5.30 (= 5.30.3-4), libpipeline1 (= 1.5.2-2), libpsl5 (= 0.21.0-1.1), libquadmath0 (= 10.1.0-4), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b1), libsasl2-2 (= 2.1.27+dfsg-2), libsasl2-modules-db (= 2.1.27+dfsg-2), libseccomp2 (= 2.4.3-1+b1), libselinux1 (= 3.0-1+b3), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.35.2-4), libssh2-1 (= 1.8.0-2.1), libssl1.1 (= 1.1.1g-1), libstdc++-9-dev (= 9.3.0-14), libstdc++6 (= 10.1.0-4), libsub-override-perl (= 0.09-2), libsystemd0 (= 245.6-1), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2-1), libtool (= 2.4.6-14), libtsan0 (= 10.1.0-4), libubsan1 (= 10.1.0-4), libuchardet0 (= 0.0.7-1), libudev1 (= 245.6-1), libunistring2 (= 0.9.10-4), libuuid1 (= 2.35.2-4), libxml2 (= 2.9.10+dfsg-5+b1), libzstd1 (= 1.4.5+dfsg-2), linux-libc-dev (= 5.6.14-2), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-4), make (= 4.3-3), man-db (= 2.9.2-1), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2-1), ncurses-bin (= 6.2-1), patch (= 2.7.6-6), perl (= 5.30.3-4), perl-base (= 5.30.3-4), perl-modules-5.30 (= 5.30.3-4), pkg-config (= 0.29.2-1), po-debconf (= 1.0.21), r-mathlib (= 4.0.1-1), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-3), tar (= 1.30+dfsg-7), util-linux (= 2.35.2-4), xz-utils (= 5.2.4-1+b1), 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_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1577309236" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ qtltools-dbgsym_1.2+dfsg-2_s390x.deb ------------------------------------ new Debian package, version 2.0. size 53862228 bytes: control archive=540 bytes. 382 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: qtltools-dbgsym Source: qtltools Version: 1.2+dfsg-2 Auto-Built-Package: debug-symbols Architecture: s390x Maintainer: Debian Med Packaging Team Installed-Size: 53291 Depends: qtltools (= 1.2+dfsg-2) Section: debug Priority: optional Description: debug symbols for qtltools Build-Ids: 15a2f904c36e6871e7dc5715e27d2663b2e6d8ec drwxr-xr-x root/root 0 2019-12-25 21:27 ./ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/lib/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/lib/debug/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/lib/debug/.build-id/15/ -rw-r--r-- root/root 54559168 2019-12-25 21:27 ./usr/lib/debug/.build-id/15/a2f904c36e6871e7dc5715e27d2663b2e6d8ec.debug drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/share/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/share/doc/ lrwxrwxrwx root/root 0 2019-12-25 21:27 ./usr/share/doc/qtltools-dbgsym -> qtltools qtltools_1.2+dfsg-2_s390x.deb ----------------------------- new Debian package, version 2.0. size 607128 bytes: control archive=944 bytes. 934 bytes, 17 lines control 262 bytes, 4 lines md5sums Package: qtltools Version: 1.2+dfsg-2 Architecture: s390x Maintainer: Debian Med Packaging Team Installed-Size: 2410 Depends: libblas3 | libblas.so.3, libboost-iostreams1.71.0, libboost-program-options1.71.0, libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgsl25 (>= 2.6), libhts3 (>= 1.10), libstdc++6 (>= 5.2), r-mathlib Suggests: qtltools-example Section: science Priority: optional Homepage: https://qtltools.github.io/qtltools/ Description: Tool set for molecular QTL discovery and analysis QTLtools is a tool set for molecular Quantitative Trait Loci (QTL) discovery and analysis. It allows user to go from the raw sequence data to collection of molecular QTL in few easy-to-perform steps. QTLtools contains multiple methods to prepare the data, to discover proximal and distal molecular QTL and to finally integrate them with GWAS variants and functional annotations of the genome. drwxr-xr-x root/root 0 2019-12-25 21:27 ./ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/bin/ -rwxr-xr-x root/root 2451656 2019-12-25 21:27 ./usr/bin/QTLtools drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/share/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/share/doc/qtltools/ -rw-r--r-- root/root 770 2019-12-25 21:27 ./usr/share/doc/qtltools/changelog.Debian.gz -rw-r--r-- root/root 2843 2019-12-25 14:43 ./usr/share/doc/qtltools/copyright drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/share/man/ drwxr-xr-x root/root 0 2019-12-25 21:27 ./usr/share/man/man1/ -rw-r--r-- root/root 1601 2019-12-25 21:27 ./usr/share/man/man1/QTLtools.1.gz lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [589 B] Get:5 copy:/<>/apt_archive ./ Packages [672 B] Fetched 2224 B in 0s (87.2 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 libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-address-xs-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-socket-ssl-perl libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl libmailtools-perl libmetrics-any-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libssl1.1 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtest-metrics-any-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common t1utils Suggested packages: libxml-parser-perl libdata-dump-perl ca-certificates libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libdevel-stacktrace-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc Recommended packages: gnupg libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libperl4-corelibs-perl libauthen-sasl-perl libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-address-xs-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-socket-ssl-perl libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl libmailtools-perl libmetrics-any-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libssl1.1 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtest-metrics-any-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:s390x t1utils 0 upgraded, 83 newly installed, 0 to remove and 0 not upgraded. Need to get 9427 kB of archives. After this operation, 26.7 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [852 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 8.0-4 [72.5 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline8 amd64 8.0-4 [160 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 netbase all 6.1 [19.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.63-1 [35.6 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.3-7.1 [50.5 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.20-1 [532 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.32.3-1 [753 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.20-1 [894 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.36+b3 [71.0 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b2 [11.3 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libdynaloader-functions-perl all 0.003-1 [12.6 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.008-1+b1 [15.9 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b2 [25.6 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-implementation-perl all 0.09-1 [12.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libvariable-magic-perl amd64 0.62-1+b2 [46.0 kB] Get:20 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Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.45-1 [84.4 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-2 [90.2 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-5 [105 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.12-1 [12.9 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libmetrics-any-perl all 0.05-2 [36.8 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libtest-metrics-any-perl all 0.01-2 [7060 B] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.77-2 [273 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 liblinux-epoll-perl amd64 0.017-1 [16.8 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-loop-epoll-perl all 0.21-1 [12.1 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-maybexs-perl all 1.004002-1 [13.1 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.53-1 [68.9 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b5 [63.6 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-utilsby-perl all 0.11-1 [15.4 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.001004-1 [20.8 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.004000-1 [59.4 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1 [10.2 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.38-1 [21.7 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b2 [12.0 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1 [13.5 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.114-1 [53.6 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-decoder-perl amd64 4.014+ds-1 [106 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libsereal-encoder-perl amd64 4.014+ds-1 [108 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.010002-1 [338 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 libunicode-utf8-perl amd64 0.62-1+b1 [20.2 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-writer-perl all 0.625-1 [29.7 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.82+repack-1 [35.6 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-3 [89.9 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.80.0 [1286 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9427 kB in 0s (48.5 MB/s) Selecting previously unselected package readline-common. (Reading database ... 36729 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.0-4_all.deb ... Unpacking readline-common (8.0-4) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../01-libreadline8_8.0-4_amd64.deb ... Unpacking libreadline8:amd64 (8.0-4) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.1_all.deb ... Unpacking netbase (6.1) ... Selecting previously unselected package diffstat. Preparing to unpack .../03-diffstat_1.63-1_amd64.deb ... Unpacking diffstat (1.63-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../04-libassuan0_2.5.3-7.1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.3-7.1) ... Selecting previously unselected package gpgconf. Preparing to unpack .../05-gpgconf_2.2.20-1_amd64.deb ... Unpacking gpgconf (2.2.20-1) ... Selecting previously unselected package libsqlite3-0:amd64. 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I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 3307324 Build-Time: 2961 Distribution: unstable Foreign Architectures: s390x Host Architecture: s390x Install-Time: 26 Job: qtltools_1.2+dfsg-2 Lintian: pass Machine Architecture: amd64 Package: qtltools Package-Time: 2998 Source-Version: 1.2+dfsg-2 Space: 3307324 Status: successful Version: 1.2+dfsg-2 -------------------------------------------------------------------------------- Finished at 2020-06-22T04:47:06Z Build needed 00:49:58, 3307324k disk space