sbuild (Debian sbuild) 0.85.0 (04 January 2023) on mjolnir.einval.org +==============================================================================+ | rsem 1.3.3+dfsg-3 (i386) Thu, 29 May 2025 22:48:14 +0000 | +==============================================================================+ Package: rsem Version: 1.3.3+dfsg-3 Source Version: 1.3.3+dfsg-3 Distribution: unstable Machine Architecture: arm64 Host Architecture: i386 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Unpacking /home/helmut/.cache/sbuild/unstable-arm64-sbuild.tar.zst to /tmp/tmp.sbuild.g4OkAXg1I4... I: NOTICE: Log filtering will replace 'sbuild-unshare-dummy-location' with '<>' I: NOTICE: Log filtering will replace 'build/rsem-A74HGX/resolver-zOgT01' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://mirror.einval.org/debian unstable InRelease [208 kB] Get:2 http://mirror.einval.org/debian unstable/main Sources [10.9 MB] Get:3 http://mirror.einval.org/debian unstable/main i386 Packages [9854 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 Packages [10.0 MB] Fetched 31.0 MB in 7s (4362 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt apt-utils libapt-pkg7.0 libsqlite3-0 libssl3t64 linux-libc-dev openssl-provider-legacy 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 9140 kB of archives. After this operation, 3072 B of additional disk space will be used. Get:1 http://mirror.einval.org/debian unstable/main arm64 openssl-provider-legacy arm64 3.5.0-2 [304 kB] Get:2 http://mirror.einval.org/debian unstable/main arm64 libssl3t64 arm64 3.5.0-2 [2745 kB] Get:3 http://mirror.einval.org/debian unstable/main arm64 libapt-pkg7.0 arm64 3.0.2 [978 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 apt arm64 3.0.2 [1363 kB] Get:5 http://mirror.einval.org/debian unstable/main arm64 apt-utils arm64 3.0.2 [315 kB] Get:6 http://mirror.einval.org/debian unstable/main arm64 libsqlite3-0 arm64 3.46.1-6 [854 kB] Get:7 http://mirror.einval.org/debian unstable/main i386 linux-libc-dev all 6.12.30-1 [2580 kB] Fetched 9140 kB in 0s (72.2 MB/s) (Reading database ... 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Processing triggers for libc-bin (2.41-8) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'rsem' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/rsem.git Please use: git clone https://salsa.debian.org/med-team/rsem.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 35.9 MB of source archives. Get:1 http://mirror.einval.org/debian unstable/main rsem 1.3.3+dfsg-3 (dsc) [2249 B] Get:2 http://mirror.einval.org/debian unstable/main rsem 1.3.3+dfsg-3 (tar) [275 kB] Get:3 http://mirror.einval.org/debian unstable/main rsem 1.3.3+dfsg-3 (diff) [35.7 MB] Fetched 35.9 MB in 0s (86.2 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/rsem-A74HGX/rsem-1.3.3+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/rsem-A74HGX' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), zlib1g-dev, libncurses-dev, libboost-dev, python3:any, help2man, libhts-dev, bowtie | bowtie2, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 Filtered Build-Depends: debhelper-compat (= 13), zlib1g-dev, libncurses-dev, libboost-dev, python3:any, help2man, libhts-dev, bowtie, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-i386:arm64, libc-dev:i386, libstdc++-dev:i386 dpkg-deb: warning: root directory /<>/sbuild-build-depends-main-dummy has unusual owner or group 998:999 dpkg-deb: hint: you might need to pass --root-owner-group, see for further details dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [842 B] Get:5 copy:/<>/apt_archive ./ Packages [838 B] Fetched 2289 B in 0s (88.5 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Execute external solver... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-i686-linux-gnu bowtie bsdextrautils comerr-dev:i386 cpp-14-i686-linux-gnu cpp-i686-linux-gnu crossbuild-essential-i386 debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-i686-linux-gnu g++-i686-linux-gnu gcc-14-base:i386 gcc-14-cross-base gcc-14-i686-linux-gnu gcc-14-i686-linux-gnu-base gcc-i686-linux-gnu gettext gettext-base groff-base help2man intltool-debian krb5-multidev:i386 libarchive-zip-perl libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libboost-dev:i386 libboost1.83-dev:i386 libbrotli-dev:i386 libbrotli1:i386 libbz2-1.0:i386 libbz2-dev:i386 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcom-err2:i386 libcrypt-dev:i386 libcrypt1:i386 libcurl3t64-gnutls:i386 libcurl4-gnutls-dev:i386 libdb5.3t64:i386 libdebhelper-perl libdeflate-dev:i386 libdeflate0:i386 libelf1t64 libevent-2.1-7t64:i386 libexpat1 libfakeroot libffi8 libffi8:i386 libfile-stripnondeterminism-perl libgcc-14-dev:i386 libgcc-14-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgmp-dev:i386 libgmp10:i386 libgmpxx4ldbl:i386 libgnutls-dane0t64:i386 libgnutls-openssl27t64:i386 libgnutls28-dev:i386 libgnutls30t64:i386 libgomp1:i386 libgomp1-i386-cross libgssapi-krb5-2:i386 libgssrpc4t64:i386 libhogweed6t64:i386 libhts-dev:i386 libhts3t64:i386 libhtscodecs2:i386 libidn2-0:i386 libidn2-dev:i386 libitm1:i386 libitm1-i386-cross libk5crypto3:i386 libkadm5clnt-mit12:i386 libkadm5srv-mit12:i386 libkdb5-10t64:i386 libkeyutils1:i386 libkrb5-3:i386 libkrb5-dev:i386 libkrb5support0:i386 libldap-dev:i386 libldap2:i386 liblocale-gettext-perl liblzma-dev:i386 liblzma5:i386 libmagic-mgc libmagic1t64 libncurses-dev:i386 libncurses6:i386 libncursesw6 libncursesw6:i386 libnettle8t64:i386 libnghttp2-14:i386 libnghttp2-dev:i386 libnghttp3-9:i386 libnghttp3-dev:i386 libngtcp2-16:i386 libngtcp2-crypto-gnutls-dev:i386 libngtcp2-crypto-gnutls8:i386 libngtcp2-dev:i386 libp11-kit-dev:i386 libp11-kit0:i386 libpipeline1 libpkgconf3 libpsl-dev:i386 libpsl5t64:i386 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libquadmath0:i386 libquadmath0-i386-cross libreadline8t64 librtmp-dev:i386 librtmp1:i386 libsasl2-2:i386 libsasl2-modules-db:i386 libssh2-1-dev:i386 libssh2-1t64:i386 libssl-dev:i386 libssl3t64:i386 libstdc++-14-dev:i386 libstdc++-14-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libtasn1-6:i386 libtasn1-6-dev:i386 libtinfo6:i386 libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunbound8:i386 libunistring5 libunistring5:i386 libxml2 libzstd-dev:i386 libzstd1:i386 linux-libc-dev-i386-cross m4 man-db media-types netbase nettle-dev:i386 pkgconf:i386 pkgconf-bin po-debconf python3 python3-minimal python3.13 python3.13-minimal readline-common sensible-utils tzdata zlib1g:i386 zlib1g-dev:i386 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc bowtie-examples doc-base:i386 gcc-14-locales cpp-14-doc cpp-doc dh-make gcc-14-doc manpages-dev flex bison gdb-i686-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff krb5-doc:i386 libboost-doc:i386 libboost1.83-doc:i386 libboost-atomic1.83-dev:i386 libboost-chrono1.83-dev:i386 libboost-container1.83-dev:i386 libboost-context1.83-dev:i386 libboost-contract1.83-dev:i386 libboost-coroutine1.83-dev:i386 libboost-date-time1.83-dev:i386 libboost-exception1.83-dev:i386 libboost-fiber1.83-dev:i386 libboost-filesystem1.83-dev:i386 libboost-graph-parallel1.83-dev:i386 libboost-graph1.83-dev:i386 libboost-iostreams1.83-dev:i386 libboost-json1.83-dev:i386 libboost-locale1.83-dev:i386 libboost-log1.83-dev:i386 libboost-math1.83-dev:i386 libboost-mpi-python1.83-dev:i386 libboost-mpi1.83-dev:i386 libboost-nowide1.83-dev:i386 libboost-numpy1.83-dev:i386 libboost-program-options1.83-dev:i386 libboost-python1.83-dev:i386 libboost-random1.83-dev:i386 libboost-regex1.83-dev:i386 libboost-serialization1.83-dev:i386 libboost-stacktrace1.83-dev:i386 libboost-system1.83-dev:i386 libboost-test1.83-dev:i386 libboost-thread1.83-dev:i386 libboost-timer1.83-dev:i386 libboost-type-erasure1.83-dev:i386 libboost-url1.83-dev:i386 libboost-wave1.83-dev:i386 libboost1.83-tools-dev:i386 libmpfrc++-dev:i386 libntl-dev:i386 glibc-doc:i386 libc-l10n:i386 locales:i386 libnss-nis:i386 libnss-nisplus:i386 manpages-dev:i386 libcurl4-doc:i386 libidn-dev:i386 gmp-doc:i386 libgmp10-doc:i386 libmpfr-dev:i386 dns-root-data:i386 gnutls-bin:i386 gnutls-doc:i386 krb5-user:i386 liblzma-doc:i386 ncurses-doc:i386 libnghttp2-doc:i386 p11-kit-doc:i386 libssl-doc:i386 libstdc++-14-doc:i386 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python3.13-venv python3.13-doc binfmt-support readline-doc Recommended packages: curl | wget | lynx bzip2-doc:i386 ca-certificates:i386 libarchive-cpio-perl krb5-locales:i386 libldap-common:i386 libgpm2:i386 libgpm2 publicsuffix:i386 libsasl2-modules:i386 libtasn1-doc:i386 libltdl-dev libmail-sendmail-perl ca-certificates The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-i686-linux-gnu bowtie bsdextrautils comerr-dev:i386 cpp-14-i686-linux-gnu cpp-i686-linux-gnu crossbuild-essential-i386 debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file g++-14-i686-linux-gnu g++-i686-linux-gnu gcc-14-base:i386 gcc-14-cross-base gcc-14-i686-linux-gnu gcc-14-i686-linux-gnu-base gcc-i686-linux-gnu gettext gettext-base groff-base help2man intltool-debian krb5-multidev:i386 libarchive-zip-perl libasan8:i386 libasan8-i386-cross libatomic1:i386 libatomic1-i386-cross libboost-dev:i386 libboost1.83-dev:i386 libbrotli-dev:i386 libbrotli1:i386 libbz2-1.0:i386 libbz2-dev:i386 libc6:i386 libc6-dev:i386 libc6-dev-i386-cross libc6-i386-cross libcom-err2:i386 libcrypt-dev:i386 libcrypt1:i386 libcurl3t64-gnutls:i386 libcurl4-gnutls-dev:i386 libdb5.3t64:i386 libdebhelper-perl libdeflate-dev:i386 libdeflate0:i386 libelf1t64 libevent-2.1-7t64:i386 libexpat1 libfakeroot libffi8 libffi8:i386 libfile-stripnondeterminism-perl libgcc-14-dev:i386 libgcc-14-dev-i386-cross libgcc-s1:i386 libgcc-s1-i386-cross libgmp-dev:i386 libgmp10:i386 libgmpxx4ldbl:i386 libgnutls-dane0t64:i386 libgnutls-openssl27t64:i386 libgnutls28-dev:i386 libgnutls30t64:i386 libgomp1:i386 libgomp1-i386-cross libgssapi-krb5-2:i386 libgssrpc4t64:i386 libhogweed6t64:i386 libhts-dev:i386 libhts3t64:i386 libhtscodecs2:i386 libidn2-0:i386 libidn2-dev:i386 libitm1:i386 libitm1-i386-cross libk5crypto3:i386 libkadm5clnt-mit12:i386 libkadm5srv-mit12:i386 libkdb5-10t64:i386 libkeyutils1:i386 libkrb5-3:i386 libkrb5-dev:i386 libkrb5support0:i386 libldap-dev:i386 libldap2:i386 liblocale-gettext-perl liblzma-dev:i386 liblzma5:i386 libmagic-mgc libmagic1t64 libncurses-dev:i386 libncurses6:i386 libncursesw6 libncursesw6:i386 libnettle8t64:i386 libnghttp2-14:i386 libnghttp2-dev:i386 libnghttp3-9:i386 libnghttp3-dev:i386 libngtcp2-16:i386 libngtcp2-crypto-gnutls-dev:i386 libngtcp2-crypto-gnutls8:i386 libngtcp2-dev:i386 libp11-kit-dev:i386 libp11-kit0:i386 libpipeline1 libpkgconf3 libpsl-dev:i386 libpsl5t64:i386 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libquadmath0:i386 libquadmath0-i386-cross libreadline8t64 librtmp-dev:i386 librtmp1:i386 libsasl2-2:i386 libsasl2-modules-db:i386 libssh2-1-dev:i386 libssh2-1t64:i386 libssl-dev:i386 libssl3t64:i386 libstdc++-14-dev:i386 libstdc++-14-dev-i386-cross libstdc++6:i386 libstdc++6-i386-cross libtasn1-6:i386 libtasn1-6-dev:i386 libtinfo6:i386 libtool libubsan1:i386 libubsan1-i386-cross libuchardet0 libunbound8:i386 libunistring5 libunistring5:i386 libxml2 libzstd-dev:i386 libzstd1:i386 linux-libc-dev-i386-cross m4 man-db media-types netbase nettle-dev:i386 pkgconf:i386 pkgconf-bin po-debconf python3 python3-minimal python3.13 python3.13-minimal readline-common sbuild-build-depends-main-dummy:i386 sensible-utils tzdata zlib1g:i386 zlib1g-dev:i386 0 upgraded, 168 newly installed, 0 to remove and 0 not upgraded. Need to get 130 MB of archives. After this operation, 619 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [964 B] Get:2 http://mirror.einval.org/debian unstable/main arm64 liblocale-gettext-perl arm64 1.07-7+b1 [15.2 kB] Get:3 http://mirror.einval.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.3-4 [854 kB] Get:4 http://mirror.einval.org/debian unstable/main arm64 libexpat1 arm64 2.7.1-1 [93.3 kB] Get:5 http://mirror.einval.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.3-4 [2000 kB] Get:6 http://mirror.einval.org/debian unstable/main arm64 python3-minimal arm64 3.13.3-1 [27.2 kB] Get:7 http://mirror.einval.org/debian unstable/main arm64 media-types all 13.0.0 [29.3 kB] Get:8 http://mirror.einval.org/debian unstable/main arm64 netbase all 6.5 [12.4 kB] Get:9 http://mirror.einval.org/debian unstable/main arm64 tzdata all 2025b-3 [260 kB] Get:10 http://mirror.einval.org/debian unstable/main arm64 libffi8 arm64 3.4.8-2 [21.3 kB] Get:11 http://mirror.einval.org/debian unstable/main arm64 libncursesw6 arm64 6.5+20250216-2 [124 kB] Get:12 http://mirror.einval.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB] Get:13 http://mirror.einval.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get:14 http://mirror.einval.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.3-4 [1890 kB] Get:15 http://mirror.einval.org/debian unstable/main arm64 python3.13 arm64 3.13.3-4 [751 kB] Get:16 http://mirror.einval.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.3-1 [10.2 kB] Get:17 http://mirror.einval.org/debian unstable/main arm64 python3 arm64 3.13.3-1 [28.2 kB] Get:18 http://mirror.einval.org/debian unstable/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get:19 http://mirror.einval.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get:20 http://mirror.einval.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get:21 http://mirror.einval.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get:22 http://mirror.einval.org/debian unstable/main arm64 gettext-base arm64 0.23.1-2 [241 kB] Get:23 http://mirror.einval.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get:24 http://mirror.einval.org/debian unstable/main arm64 groff-base arm64 1.23.0-8 [1131 kB] Get:25 http://mirror.einval.org/debian unstable/main arm64 bsdextrautils arm64 2.41-5 [93.8 kB] Get:26 http://mirror.einval.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get:27 http://mirror.einval.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get:28 http://mirror.einval.org/debian unstable/main arm64 m4 arm64 1.4.19-8 [285 kB] Get:29 http://mirror.einval.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get:30 http://mirror.einval.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get:31 http://mirror.einval.org/debian unstable/main arm64 automake all 1:1.17-4 [862 kB] Get:32 http://mirror.einval.org/debian unstable/main arm64 autopoint all 0.23.1-2 [770 kB] Get:33 http://mirror.einval.org/debian unstable/main arm64 bowtie arm64 1.3.1-3+b2 [1317 kB] Get:34 http://mirror.einval.org/debian unstable/main i386 gcc-14-base i386 14.2.0-19 [49.4 kB] Get:35 http://mirror.einval.org/debian unstable/main i386 libgcc-s1 i386 14.2.0-19 [88.2 kB] Get:36 http://mirror.einval.org/debian unstable/main i386 libc6 i386 2.41-8 [2718 kB] Get:37 http://mirror.einval.org/debian unstable/main i386 libcrypt1 i386 1:4.4.38-1 [95.7 kB] Get:38 http://mirror.einval.org/debian unstable/main i386 libcrypt-dev i386 1:4.4.38-1 [126 kB] Get:39 http://mirror.einval.org/debian unstable/main i386 libc6-dev i386 2.41-8 [1809 kB] Get:40 http://mirror.einval.org/debian unstable/main i386 libcom-err2 i386 1.47.2-1+b1 [24.6 kB] Get:41 http://mirror.einval.org/debian unstable/main i386 comerr-dev i386 2.1-1.47.2-1+b1 [56.4 kB] Get:42 http://mirror.einval.org/debian unstable/main arm64 gcc-14-i686-linux-gnu-base arm64 14.2.0-19cross1 [49.6 kB] Get:43 http://mirror.einval.org/debian unstable/main arm64 cpp-14-i686-linux-gnu arm64 14.2.0-19cross1 [10.4 MB] Get:44 http://mirror.einval.org/debian unstable/main arm64 cpp-i686-linux-gnu arm64 4:14.2.0-1 [4840 B] Get:45 http://mirror.einval.org/debian unstable/main arm64 binutils-i686-linux-gnu arm64 2.44-3 [1479 kB] Get:46 http://mirror.einval.org/debian unstable/main arm64 gcc-14-cross-base all 14.2.0-19cross1 [44.9 kB] Get:47 http://mirror.einval.org/debian unstable/main arm64 libc6-i386-cross all 2.41-8cross1 [1423 kB] Get:48 http://mirror.einval.org/debian unstable/main arm64 libgcc-s1-i386-cross all 14.2.0-19cross1 [88.2 kB] Get:49 http://mirror.einval.org/debian unstable/main arm64 libgomp1-i386-cross all 14.2.0-19cross1 [136 kB] Get:50 http://mirror.einval.org/debian unstable/main arm64 libitm1-i386-cross all 14.2.0-19cross1 [26.9 kB] Get:51 http://mirror.einval.org/debian unstable/main arm64 libatomic1-i386-cross all 14.2.0-19cross1 [7384 B] Get:52 http://mirror.einval.org/debian unstable/main arm64 libasan8-i386-cross all 14.2.0-19cross1 [2597 kB] Get:53 http://mirror.einval.org/debian unstable/main arm64 libstdc++6-i386-cross all 14.2.0-19cross1 [719 kB] Get:54 http://mirror.einval.org/debian unstable/main arm64 libubsan1-i386-cross all 14.2.0-19cross1 [1052 kB] Get:55 http://mirror.einval.org/debian unstable/main arm64 libquadmath0-i386-cross all 14.2.0-19cross1 [231 kB] Get:56 http://mirror.einval.org/debian unstable/main arm64 libgcc-14-dev-i386-cross all 14.2.0-19cross1 [2583 kB] Get:57 http://mirror.einval.org/debian unstable/main arm64 gcc-14-i686-linux-gnu arm64 14.2.0-19cross1 [20.0 MB] Get:58 http://mirror.einval.org/debian unstable/main arm64 gcc-i686-linux-gnu arm64 4:14.2.0-1 [1444 B] Get:59 http://mirror.einval.org/debian unstable/main arm64 linux-libc-dev-i386-cross all 6.12.29-1cross1 [2420 kB] Get:60 http://mirror.einval.org/debian unstable/main arm64 libc6-dev-i386-cross all 2.41-8cross1 [1805 kB] Get:61 http://mirror.einval.org/debian unstable/main arm64 libstdc++-14-dev-i386-cross all 14.2.0-19cross1 [2426 kB] Get:62 http://mirror.einval.org/debian unstable/main arm64 g++-14-i686-linux-gnu arm64 14.2.0-19cross1 [11.2 MB] Get:63 http://mirror.einval.org/debian unstable/main arm64 g++-i686-linux-gnu arm64 4:14.2.0-1 [1200 B] Get:64 http://mirror.einval.org/debian unstable/main arm64 crossbuild-essential-i386 all 12.12 [3544 B] Get:65 http://mirror.einval.org/debian unstable/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get:66 http://mirror.einval.org/debian unstable/main arm64 libtool all 2.5.4-4 [539 kB] Get:67 http://mirror.einval.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get:68 http://mirror.einval.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get:69 http://mirror.einval.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get:70 http://mirror.einval.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get:71 http://mirror.einval.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get:72 http://mirror.einval.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get:73 http://mirror.einval.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get:74 http://mirror.einval.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-1 [629 kB] Get:75 http://mirror.einval.org/debian unstable/main arm64 gettext arm64 0.23.1-2 [1611 kB] Get:76 http://mirror.einval.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:77 http://mirror.einval.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:78 http://mirror.einval.org/debian unstable/main arm64 debhelper all 13.24.2 [919 kB] Get:79 http://mirror.einval.org/debian unstable/main arm64 libfakeroot arm64 1.37.1.2-1 [29.7 kB] Get:80 http://mirror.einval.org/debian unstable/main arm64 fakeroot arm64 1.37.1.2-1 [75.4 kB] Get:81 http://mirror.einval.org/debian unstable/main arm64 help2man arm64 1.49.3+b1 [198 kB] Get:82 http://mirror.einval.org/debian unstable/main i386 libkrb5support0 i386 1.21.3-5 [35.3 kB] Get:83 http://mirror.einval.org/debian unstable/main i386 libk5crypto3 i386 1.21.3-5 [84.3 kB] Get:84 http://mirror.einval.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-6 [9964 B] Get:85 http://mirror.einval.org/debian unstable/main i386 libzstd1 i386 1.5.7+dfsg-1 [309 kB] Get:86 http://mirror.einval.org/debian unstable/main i386 zlib1g i386 1:1.3.dfsg+really1.3.1-1+b1 [84.7 kB] Get:87 http://mirror.einval.org/debian unstable/main i386 libssl3t64 i386 3.5.0-2 [2416 kB] Get:88 http://mirror.einval.org/debian unstable/main i386 libkrb5-3 i386 1.21.3-5 [355 kB] Get:89 http://mirror.einval.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.21.3-5 [149 kB] Get:90 http://mirror.einval.org/debian unstable/main i386 libgssrpc4t64 i386 1.21.3-5 [63.6 kB] Get:91 http://mirror.einval.org/debian unstable/main i386 libkadm5clnt-mit12 i386 1.21.3-5 [44.2 kB] Get:92 http://mirror.einval.org/debian unstable/main i386 libkdb5-10t64 i386 1.21.3-5 [45.6 kB] Get:93 http://mirror.einval.org/debian unstable/main i386 libkadm5srv-mit12 i386 1.21.3-5 [57.9 kB] Get:94 http://mirror.einval.org/debian unstable/main i386 krb5-multidev i386 1.21.3-5 [126 kB] Get:95 http://mirror.einval.org/debian unstable/main i386 libasan8 i386 14.2.0-19 [2605 kB] Get:96 http://mirror.einval.org/debian unstable/main i386 libatomic1 i386 14.2.0-19 [7648 B] Get:97 http://mirror.einval.org/debian unstable/main i386 libgomp1 i386 14.2.0-19 [138 kB] Get:98 http://mirror.einval.org/debian unstable/main i386 libitm1 i386 14.2.0-19 [27.4 kB] Get:99 http://mirror.einval.org/debian unstable/main i386 libstdc++6 i386 14.2.0-19 [765 kB] Get:100 http://mirror.einval.org/debian unstable/main i386 libubsan1 i386 14.2.0-19 [1054 kB] Get:101 http://mirror.einval.org/debian unstable/main i386 libquadmath0 i386 14.2.0-19 [231 kB] Get:102 http://mirror.einval.org/debian unstable/main i386 libgcc-14-dev i386 14.2.0-19 [2581 kB] Get:103 http://mirror.einval.org/debian unstable/main i386 libstdc++-14-dev i386 14.2.0-19 [2443 kB] Get:104 http://mirror.einval.org/debian unstable/main i386 libboost1.83-dev i386 1.83.0-4.2 [10.6 MB] Get:105 http://mirror.einval.org/debian unstable/main i386 libboost-dev i386 1.83.0.2+b2 [3840 B] Get:106 http://mirror.einval.org/debian unstable/main i386 libbrotli1 i386 1.1.0-2+b7 [299 kB] Get:107 http://mirror.einval.org/debian unstable/main i386 libbrotli-dev i386 1.1.0-2+b7 [313 kB] Get:108 http://mirror.einval.org/debian unstable/main i386 libbz2-1.0 i386 1.0.8-6 [38.1 kB] Get:109 http://mirror.einval.org/debian unstable/main i386 libbz2-dev i386 1.0.8-6 [32.1 kB] Get:110 http://mirror.einval.org/debian unstable/main i386 libgmp10 i386 2:6.3.0+dfsg-3 [572 kB] Get:111 http://mirror.einval.org/debian unstable/main i386 libnettle8t64 i386 3.10.1-1 [318 kB] Get:112 http://mirror.einval.org/debian unstable/main i386 libhogweed6t64 i386 3.10.1-1 [338 kB] Get:113 http://mirror.einval.org/debian unstable/main i386 libunistring5 i386 1.3-2 [471 kB] Get:114 http://mirror.einval.org/debian unstable/main i386 libidn2-0 i386 2.3.8-2 [110 kB] Get:115 http://mirror.einval.org/debian unstable/main i386 libffi8 i386 3.4.8-2 [21.6 kB] Get:116 http://mirror.einval.org/debian unstable/main i386 libp11-kit0 i386 0.25.5-3 [423 kB] Get:117 http://mirror.einval.org/debian unstable/main i386 libtasn1-6 i386 4.20.0-2 [51.6 kB] Get:118 http://mirror.einval.org/debian unstable/main i386 libgnutls30t64 i386 3.8.9-2 [1462 kB] Get:119 http://mirror.einval.org/debian unstable/main i386 libdb5.3t64 i386 5.3.28+dfsg2-9 [767 kB] Get:120 http://mirror.einval.org/debian unstable/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-9 [20.8 kB] Get:121 http://mirror.einval.org/debian unstable/main i386 libsasl2-2 i386 2.1.28+dfsg1-9 [61.2 kB] Get:122 http://mirror.einval.org/debian unstable/main i386 libldap2 i386 2.6.9+dfsg-2 [206 kB] Get:123 http://mirror.einval.org/debian unstable/main i386 libnghttp2-14 i386 1.64.0-1.1 [83.1 kB] Get:124 http://mirror.einval.org/debian unstable/main i386 libnghttp3-9 i386 1.8.0-1 [78.7 kB] Get:125 http://mirror.einval.org/debian unstable/main i386 libngtcp2-16 i386 1.11.0-1 [163 kB] Get:126 http://mirror.einval.org/debian unstable/main i386 libngtcp2-crypto-gnutls8 i386 1.11.0-1 [29.9 kB] Get:127 http://mirror.einval.org/debian unstable/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB] Get:128 http://mirror.einval.org/debian unstable/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b5 [62.4 kB] Get:129 http://mirror.einval.org/debian unstable/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB] Get:130 http://mirror.einval.org/debian unstable/main i386 libcurl3t64-gnutls i386 8.13.0-5 [421 kB] Get:131 http://mirror.einval.org/debian unstable/main i386 libevent-2.1-7t64 i386 2.1.12-stable-10+b1 [195 kB] Get:132 http://mirror.einval.org/debian unstable/main i386 libunbound8 i386 1.22.0-1+b1 [633 kB] Get:133 http://mirror.einval.org/debian unstable/main i386 libgnutls-dane0t64 i386 3.8.9-2 [453 kB] Get:134 http://mirror.einval.org/debian unstable/main i386 libgnutls-openssl27t64 i386 3.8.9-2 [453 kB] Get:135 http://mirror.einval.org/debian unstable/main i386 libidn2-dev i386 2.3.8-2 [104 kB] Get:136 http://mirror.einval.org/debian unstable/main i386 libp11-kit-dev i386 0.25.5-3 [208 kB] Get:137 http://mirror.einval.org/debian unstable/main i386 libtasn1-6-dev i386 4.20.0-2 [103 kB] Get:138 http://mirror.einval.org/debian unstable/main i386 libgmpxx4ldbl i386 2:6.3.0+dfsg-3 [329 kB] Get:139 http://mirror.einval.org/debian unstable/main i386 libgmp-dev i386 2:6.3.0+dfsg-3 [661 kB] Get:140 http://mirror.einval.org/debian unstable/main i386 nettle-dev i386 3.10.1-1 [1335 kB] Get:141 http://mirror.einval.org/debian unstable/main i386 libgnutls28-dev i386 3.8.9-2 [1464 kB] Get:142 http://mirror.einval.org/debian unstable/main i386 libkrb5-dev i386 1.21.3-5 [16.1 kB] Get:143 http://mirror.einval.org/debian unstable/main i386 libldap-dev i386 2.6.9+dfsg-2 [332 kB] Get:144 http://mirror.einval.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get:145 http://mirror.einval.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get:146 http://mirror.einval.org/debian unstable/main i386 pkgconf i386 1.8.1-4 [26.2 kB] Get:147 http://mirror.einval.org/debian unstable/main i386 libnghttp2-dev i386 1.64.0-1.1 [125 kB] Get:148 http://mirror.einval.org/debian unstable/main i386 libnghttp3-dev i386 1.8.0-1 [104 kB] Get:149 http://mirror.einval.org/debian unstable/main i386 libngtcp2-crypto-gnutls-dev i386 1.11.0-1 [34.9 kB] Get:150 http://mirror.einval.org/debian unstable/main i386 libngtcp2-dev i386 1.11.0-1 [215 kB] Get:151 http://mirror.einval.org/debian unstable/main i386 libpsl-dev i386 0.21.2-1.1+b1 [78.4 kB] Get:152 http://mirror.einval.org/debian unstable/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1+b1 [916 kB] Get:153 http://mirror.einval.org/debian unstable/main i386 librtmp-dev i386 2.4+20151223.gitfa8646d.1-2+b5 [72.3 kB] Get:154 http://mirror.einval.org/debian unstable/main i386 libssl-dev i386 3.5.0-2 [2996 kB] Get:155 http://mirror.einval.org/debian unstable/main i386 libssh2-1-dev i386 1.11.1-1 [407 kB] Get:156 http://mirror.einval.org/debian unstable/main i386 libzstd-dev i386 1.5.7+dfsg-1 [377 kB] Get:157 http://mirror.einval.org/debian unstable/main i386 libcurl4-gnutls-dev i386 8.13.0-5 [555 kB] Get:158 http://mirror.einval.org/debian unstable/main i386 libdeflate0 i386 1.23-2 [48.2 kB] Get:159 http://mirror.einval.org/debian unstable/main i386 libdeflate-dev i386 1.23-2 [57.3 kB] Get:160 http://mirror.einval.org/debian unstable/main i386 libhtscodecs2 i386 1.6.1-2 [70.9 kB] Get:161 http://mirror.einval.org/debian unstable/main i386 liblzma5 i386 5.8.1-1 [320 kB] Get:162 http://mirror.einval.org/debian unstable/main i386 libhts3t64 i386 1.21+ds-1 [506 kB] Get:163 http://mirror.einval.org/debian unstable/main i386 liblzma-dev i386 5.8.1-1 [362 kB] Get:164 http://mirror.einval.org/debian unstable/main i386 libhts-dev i386 1.21+ds-1 [1725 kB] Get:165 http://mirror.einval.org/debian unstable/main i386 libtinfo6 i386 6.5+20250216-2 [350 kB] Get:166 http://mirror.einval.org/debian unstable/main i386 libncurses6 i386 6.5+20250216-2 [112 kB] Get:167 http://mirror.einval.org/debian unstable/main i386 libncursesw6 i386 6.5+20250216-2 [148 kB] Get:168 http://mirror.einval.org/debian unstable/main i386 libncurses-dev i386 6.5+20250216-2 [505 kB] Preconfiguring packages ... Fetched 130 MB in 2s (82.3 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 12035 files and directories currently installed.) Preparing to unpack .../liblocale-gettext-perl_1.07-7+b1_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-7+b1) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../libpython3.13-minimal_3.13.3-4_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.3-4) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.7.1-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.1-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.3-4_arm64.deb ... Unpacking python3.13-minimal (3.13.3-4) ... Setting up libpython3.13-minimal:arm64 (3.13.3-4) ... Setting up libexpat1:arm64 (2.7.1-1) ... Setting up python3.13-minimal (3.13.3-4) ... Selecting previously unselected package python3-minimal. (Reading database ... 12384 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.13.3-1_arm64.deb ... Unpacking python3-minimal (3.13.3-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_13.0.0_all.deb ... Unpacking media-types (13.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2025b-3_all.deb ... Unpacking tzdata (2025b-3) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../04-libffi8_3.4.8-2_arm64.deb ... Unpacking libffi8:arm64 (3.4.8-2) ... Selecting previously unselected package libncursesw6:arm64. Preparing to unpack .../05-libncursesw6_6.5+20250216-2_arm64.deb ... Unpacking libncursesw6:arm64 (6.5+20250216-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../06-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../07-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../08-libpython3.13-stdlib_3.13.3-4_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.3-4) ... Selecting previously unselected package python3.13. Preparing to unpack .../09-python3.13_3.13.3-4_arm64.deb ... Unpacking python3.13 (3.13.3-4) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../10-libpython3-stdlib_3.13.3-1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.13.3-1) ... Setting up python3-minimal (3.13.3-1) ... Selecting previously unselected package python3. (Reading database ... 13408 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.3-1_arm64.deb ... Unpacking python3 (3.13.3-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../002-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... 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Selecting previously unselected package libnghttp2-dev:i386. Preparing to unpack .../130-libnghttp2-dev_1.64.0-1.1_i386.deb ... Unpacking libnghttp2-dev:i386 (1.64.0-1.1) ... Selecting previously unselected package libnghttp3-dev:i386. Preparing to unpack .../131-libnghttp3-dev_1.8.0-1_i386.deb ... Unpacking libnghttp3-dev:i386 (1.8.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls-dev:i386. Preparing to unpack .../132-libngtcp2-crypto-gnutls-dev_1.11.0-1_i386.deb ... Unpacking libngtcp2-crypto-gnutls-dev:i386 (1.11.0-1) ... Selecting previously unselected package libngtcp2-dev:i386. Preparing to unpack .../133-libngtcp2-dev_1.11.0-1_i386.deb ... Unpacking libngtcp2-dev:i386 (1.11.0-1) ... Selecting previously unselected package libpsl-dev:i386. Preparing to unpack .../134-libpsl-dev_0.21.2-1.1+b1_i386.deb ... Unpacking libpsl-dev:i386 (0.21.2-1.1+b1) ... Selecting previously unselected package zlib1g-dev:i386. 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Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-1) ... Setting up liblocale-gettext-perl (1.07-7+b1) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-2) ... Setting up libtool (2.5.4-4) ... Setting up libatomic1-i386-cross (14.2.0-19cross1) ... Setting up libgomp1-i386-cross (14.2.0-19cross1) ... Setting up libc6-dev-i386-cross (2.41-8cross1) ... Setting up pkgconf:i386 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3+b1) ... Setting up libgcc-s1-i386-cross (14.2.0-19cross1) ... Setting up dh-autoreconf (20) ... Setting up libitm1-i386-cross (14.2.0-19cross1) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-8) ... Setting up cpp-i686-linux-gnu (4:14.2.0-1) ... Setting up libpython3.13-stdlib:arm64 (3.13.3-4) ... Setting up libpython3-stdlib:arm64 (3.13.3-1) ... Setting up python3.13 (3.13.3-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3 (3.13.3-1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libasan8-i386-cross (14.2.0-19cross1) ... Setting up libstdc++6-i386-cross (14.2.0-19cross1) ... Setting up bowtie (1.3.1-3+b2) ... Setting up debhelper (13.24.2) ... Setting up libubsan1-i386-cross (14.2.0-19cross1) ... Setting up libgcc-14-dev-i386-cross (14.2.0-19cross1) ... Setting up gcc-14-i686-linux-gnu (14.2.0-19cross1) ... Setting up gcc-i686-linux-gnu (4:14.2.0-1) ... Setting up libstdc++-14-dev-i386-cross (14.2.0-19cross1) ... Setting up g++-14-i686-linux-gnu (14.2.0-19cross1) ... Setting up g++-i686-linux-gnu (4:14.2.0-1) ... Setting up crossbuild-essential-i386 (12.12) ... Setting up libgcc-s1:i386 (14.2.0-19) ... Setting up libc6:i386 (2.41-8) ... Setting up libnghttp3-9:i386 (1.8.0-1) ... Setting up libnghttp3-dev:i386 (1.8.0-1) ... Setting up libdb5.3t64:i386 (5.3.28+dfsg2-9) ... Setting up libffi8:i386 (3.4.8-2) ... Setting up libasan8:i386 (14.2.0-19) ... Setting up libtasn1-6:i386 (4.20.0-2) ... Setting up libngtcp2-16:i386 (1.11.0-1) ... Setting up libbz2-1.0:i386 (1.0.8-6) ... Setting up libtasn1-6-dev:i386 (4.20.0-2) ... Setting up libstdc++6:i386 (14.2.0-19) ... Setting up libitm1:i386 (14.2.0-19) ... Setting up libtinfo6:i386 (6.5+20250216-2) ... Setting up libhtscodecs2:i386 (1.6.1-2) ... Setting up libzstd1:i386 (1.5.7+dfsg-1) ... Setting up libkeyutils1:i386 (1.6.3-6) ... Setting up libzstd-dev:i386 (1.5.7+dfsg-1) ... Setting up liblzma5:i386 (5.8.1-1) ... Setting up libbrotli1:i386 (1.1.0-2+b7) ... Setting up libnghttp2-14:i386 (1.64.0-1.1) ... Setting up libdeflate0:i386 (1.23-2) ... Setting up libevent-2.1-7t64:i386 (2.1.12-stable-10+b1) ... Setting up zlib1g:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libcrypt1:i386 (1:4.4.38-1) ... Setting up libcom-err2:i386 (1.47.2-1+b1) ... Setting up libngtcp2-dev:i386 (1.11.0-1) ... Setting up libgomp1:i386 (14.2.0-19) ... Setting up libkrb5support0:i386 (1.21.3-5) ... Setting up libsasl2-modules-db:i386 (2.1.28+dfsg1-9) ... Setting up libnettle8t64:i386 (3.10.1-1) ... Setting up libgmp10:i386 (2:6.3.0+dfsg-3) ... Setting up libncurses6:i386 (6.5+20250216-2) ... Setting up libquadmath0:i386 (14.2.0-19) ... Setting up libp11-kit0:i386 (0.25.5-3) ... Setting up libunistring5:i386 (1.3-2) ... Setting up libatomic1:i386 (14.2.0-19) ... Setting up libncursesw6:i386 (6.5+20250216-2) ... Setting up libk5crypto3:i386 (1.21.3-5) ... Setting up liblzma-dev:i386 (5.8.1-1) ... Setting up libubsan1:i386 (14.2.0-19) ... Setting up libhogweed6t64:i386 (3.10.1-1) ... Setting up libcrypt-dev:i386 (1:4.4.38-1) ... Setting up libc6-dev:i386 (2.41-8) ... Setting up libgcc-14-dev:i386 (14.2.0-19) ... Setting up libdeflate-dev:i386 (1.23-2) ... Setting up libstdc++-14-dev:i386 (14.2.0-19) ... Setting up libbrotli-dev:i386 (1.1.0-2+b7) ... Setting up libp11-kit-dev:i386 (0.25.5-3) ... Setting up libbz2-dev:i386 (1.0.8-6) ... Setting up libnghttp2-dev:i386 (1.64.0-1.1) ... Setting up libboost1.83-dev:i386 (1.83.0-4.2) ... Setting up libncurses-dev:i386 (6.5+20250216-2) ... Setting up libssl3t64:i386 (3.5.0-2) ... Setting up libidn2-0:i386 (2.3.8-2) ... Setting up libunbound8:i386 (1.22.0-1+b1) ... Setting up libgmpxx4ldbl:i386 (2:6.3.0+dfsg-3) ... Setting up comerr-dev:i386 (2.1-1.47.2-1+b1) ... Setting up libssl-dev:i386 (3.5.0-2) ... Setting up libidn2-dev:i386 (2.3.8-2) ... Setting up libsasl2-2:i386 (2.1.28+dfsg1-9) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libkrb5-3:i386 (1.21.3-5) ... Setting up libboost-dev:i386 (1.83.0.2+b2) ... Setting up libssh2-1t64:i386 (1.11.1-1) ... Setting up libldap2:i386 (2.6.9+dfsg-2) ... Setting up libgnutls30t64:i386 (3.8.9-2) ... Setting up libgnutls-openssl27t64:i386 (3.8.9-2) ... Setting up libgmp-dev:i386 (2:6.3.0+dfsg-3) ... Setting up nettle-dev:i386 (3.10.1-1) ... Setting up libpsl5t64:i386 (0.21.2-1.1+b1) ... Setting up libpsl-dev:i386 (0.21.2-1.1+b1) ... Setting up libgnutls-dane0t64:i386 (3.8.9-2) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libldap-dev:i386 (2.6.9+dfsg-2) ... Setting up libgssapi-krb5-2:i386 (1.21.3-5) ... Setting up libssh2-1-dev:i386 (1.11.1-1) ... Setting up libngtcp2-crypto-gnutls8:i386 (1.11.0-1) ... Setting up libgnutls28-dev:i386 (3.8.9-2) ... Setting up libcurl3t64-gnutls:i386 (8.13.0-5) ... Setting up libngtcp2-crypto-gnutls-dev:i386 (1.11.0-1) ... Setting up libgssrpc4t64:i386 (1.21.3-5) ... Setting up librtmp-dev:i386 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libhts3t64:i386 (1.21+ds-1) ... Setting up libkadm5clnt-mit12:i386 (1.21.3-5) ... Setting up libkdb5-10t64:i386 (1.21.3-5) ... Setting up libkadm5srv-mit12:i386 (1.21.3-5) ... Setting up krb5-multidev:i386 (1.21.3-5) ... Setting up libkrb5-dev:i386 (1.21.3-5) ... Setting up libcurl4-gnutls-dev:i386 (8.13.0-5) ... Setting up libhts-dev:i386 (1.21+ds-1) ... Setting up sbuild-build-depends-main-dummy:i386 (0.invalid.0) ... Processing triggers for libc-bin (2.41-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (i386 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-28-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) arm64 (aarch64) Toolchain package versions: binutils_2.44-3 dpkg-dev_1.22.19 g++-14_14.2.0-19 gcc-14_14.2.0-19 libc6-dev_2.41-8 libstdc++-14-dev_14.2.0-19 libstdc++-14-dev-i386-cross_14.2.0-19cross1 libstdc++6_14.2.0-19 libstdc++6-i386-cross_14.2.0-19cross1 linux-libc-dev_6.12.30-1 Package versions: apt_3.0.2 apt-utils_3.0.2 autoconf_2.72-3.1 automake_1:1.17-4 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_13.8 base-passwd_3.6.7 bash_5.2.37-2+b2 binutils_2.44-3 binutils-aarch64-linux-gnu_2.44-3 binutils-common_2.44-3 binutils-i686-linux-gnu_2.44-3 bowtie_1.3.1-3+b2 bsdextrautils_2.41-5 bsdutils_1:2.41-5 build-essential_12.12 bzip2_1.0.8-6 comerr-dev_2.1-1.47.2-1+b1 coreutils_9.7-2 cpp_4:14.2.0-1 cpp-14_14.2.0-19 cpp-14-aarch64-linux-gnu_14.2.0-19 cpp-14-i686-linux-gnu_14.2.0-19cross1 cpp-aarch64-linux-gnu_4:14.2.0-1 cpp-i686-linux-gnu_4:14.2.0-1 crossbuild-essential-i386_12.12 dash_0.5.12-12 debconf_1.5.91 debhelper_13.24.2 debian-archive-keyring_2025.1 debianutils_5.22 dh-autoreconf_20 dh-strip-nondeterminism_1.14.1-2 diffutils_1:3.10-4 dpkg_1.22.19 dpkg-dev_1.22.19 dwz_0.15-1+b1 fakeroot_1.37.1.2-1 file_1:5.46-5 findutils_4.10.0-3 g++_4:14.2.0-1 g++-14_14.2.0-19 g++-14-aarch64-linux-gnu_14.2.0-19 g++-14-i686-linux-gnu_14.2.0-19cross1 g++-aarch64-linux-gnu_4:14.2.0-1 g++-i686-linux-gnu_4:14.2.0-1 gcc_4:14.2.0-1 gcc-14_14.2.0-19 gcc-14-aarch64-linux-gnu_14.2.0-19 gcc-14-base_14.2.0-19 gcc-14-cross-base_14.2.0-19cross1 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xz-utils_5.8.1-1 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: rsem Binary: rsem Architecture: any Version: 1.3.3+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe , Andreas Tille Homepage: https://deweylab.github.io/RSEM/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/rsem Vcs-Git: https://salsa.debian.org/med-team/rsem.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev, libncurses-dev, libboost-dev, perl , python3:any, help2man, libhts-dev, hisat2 , bowtie | bowtie2 Package-List: rsem deb science optional arch=any Checksums-Sha1: 5565e925e1efe216153215392b623d655ab513bf 275380 rsem_1.3.3+dfsg.orig.tar.xz 05cea0dbf74cb2855055322ee7ec48f022ac1a9a 35660968 rsem_1.3.3+dfsg-3.debian.tar.xz Checksums-Sha256: 43037765382f8942a03595eb12ee2ed68081f9f828cb2832388354a12ee00990 275380 rsem_1.3.3+dfsg.orig.tar.xz 957be6fa620d1a09db0e41fe6207d56ee60a8e938f5a594176c068d78e063204 35660968 rsem_1.3.3+dfsg-3.debian.tar.xz Files: 59bba49e9d7bba287320c5125d84e8bd 275380 rsem_1.3.3+dfsg.orig.tar.xz 4371920046ae5a0f654c8cae94a84c0c 35660968 rsem_1.3.3+dfsg-3.debian.tar.xz Dgit: 87fe4c33d81e96bb4704a476dde491ef3207ab24 debian archive/debian/1.3.3+dfsg-3 https://git.dgit.debian.org/rsem -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmWAQ20UHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdokyQ//SNKe4BXEPLVFcAVF/7TrICkowWQ8 nzkIT5MS2BDq9HSbt3lb7XTbZ6g6gVQ5xLsBwgBLllWrcZPfipfuDrxSxku5gERB i9Fxyte8uqE97LX1AYiy4+Xbx/k8dOm97V3mwh6AVvV3zjP7OiUuhTR2xxTtV1A6 vv1YFYCph1kR91f2ZjzVr1NkKMGNxpe1UGQ002GNWgYVsp0Q36QfF5RJp8r18LWf bJn/j32atSIOO7IM28F8/x75OIBCgOPEDgAgEUWwl4S9lS+jxQCkXE5w9R+LAEl8 czo9H1iSAK9bAN+6SYQiL7pxkxUljaH8JhRoDJhKqDE3Df5mF51ATdwPzg7r7yam XFX5P9B5ViAd6CaOoWsF97M/FY1EnvL08ZxGILEgyliksi+1ye8UxT5T453yXwZm ajo2YBH/l0lm+/k861MMnssMcSkmeT5fTatn0g6RGUgdbMmjE5JnZxN5flJ+qNzC RobpHL4SLihWT7BDDogOSXMYnIByAMfrPiwSaG3do6/wa1+XfRMW5mzcA6Cyj+MY vFXjFL7i9FXJfYfyGNjSKOXrw3w2fw9QpP13QNkKawqoCfJ12EhrHni7oEqAg4J0 LNPU18sMMmki52BblJ4VN2rEimp0QxFGsZwBVvJvXqeUg0fdU0I97paVzcqFFMVT m+l1fDNky96/wR4= =j51B -----END PGP SIGNATURE----- error: the following required arguments were not provided: --keyring Usage: sqv --keyring --cleartext --output For more information, try '--help'. dpkg-source: warning: cannot verify inline signature for ./rsem_1.3.3+dfsg-3.dsc: no acceptable signature found dpkg-source: info: extracting rsem in /<> dpkg-source: info: unpacking rsem_1.3.3+dfsg.orig.tar.xz dpkg-source: info: unpacking rsem_1.3.3+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening dpkg-source: info: applying use_debian_packaged_samtools.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying stdgnu++11.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.i386 DEB_BUILD_OPTIONS=nocheck HOME=/var/lib/sbuild LANG=en_GB.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/<> SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -ai386 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package rsem dpkg-buildpackage: info: source version 1.3.3+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-architecture: warning: specified GNU system type i686-linux-gnu does not match CC system type aarch64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_auto_clean make -j1 clean make[1]: Entering directory '/<>' rm -f *.o *~ rsem-extract-reference-transcripts rsem-synthesis-reference-transcripts rsem-preref rsem-build-read-index rsem-simulate-reads rsem-parse-alignments rsem-run-em rsem-tbam2gbam rsem-bam2wig rsem-bam2readdepth rsem-get-unique rsem-sam-validator rsem-scan-for-paired-end-reads rsem-run-gibbs rsem-calculate-credibility-intervals cd EBSeq && make clean make[2]: Entering directory '/<>/EBSeq' rm -rf EBSeq rsem-for-ebseq-calculate-clustering-info blockmodeling gplots gtools gdata caTools bitops KernSmooth BiocInstaller *~ make[2]: Leaving directory '/<>/EBSeq' cd pRSEM && make clean make[2]: Entering directory '/<>/pRSEM' rm -fr bigWigSummary RLib filterSam2Bed *.pyc make[2]: Leaving directory '/<>/pRSEM' make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- BOOST=/usr/include prefix=debian/tmp make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=i686-linux-gnu-pkg-config CXX=i686-linux-gnu-g\+\+ CC=i686-linux-gnu-gcc BOOST=/usr/include prefix=debian/tmp make[2]: Entering directory '/<>' i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o extractRef.o extractRef.cpp i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -o rsem-extract-reference-transcripts extractRef.o i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o synthesisRef.o synthesisRef.cpp i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -o rsem-synthesis-reference-transcripts synthesisRef.o i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o preRef.o preRef.cpp i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -o rsem-preref preRef.o i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o buildReadIndex.o buildReadIndex.cpp i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -o rsem-build-read-index buildReadIndex.o i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -ffast-math -c -o simulation.o simulation.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from LenDist.h:10, from SingleModel.h:17, from simulation.cpp:22: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from simulation.cpp:13: utils.h: In member function ‘void PairedEndQModel::estimateFromReads(const char*)’: utils.h:146:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 146 | sprintf(readFs[0], "%s_%s_1.%s", readFN, tags[tagType], suffix); | ^~ In file included from /usr/i686-linux-gnu/include/stdio.h:970, from /usr/i686-linux-gnu/include/c++/14/cstdio:42, from simulation.cpp:3: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:146:10, inlined from ‘void PairedEndQModel::estimateFromReads(const char*)’ at PairedEndQModel.h:251:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 7 or more bytes (assuming 30021) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndQModel::estimateFromReads(const char*)’: utils.h:147:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 10004 [-Wformat-overflow=] 147 | sprintf(readFs[1], "%s_%s_2.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:147:10, inlined from ‘void PairedEndQModel::estimateFromReads(const char*)’ at PairedEndQModel.h:251:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndModel::estimateFromReads(const char*)’: utils.h:146:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 146 | sprintf(readFs[0], "%s_%s_1.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:146:10, inlined from ‘void PairedEndModel::estimateFromReads(const char*)’ at PairedEndModel.h:245:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 7 or more bytes (assuming 30021) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndModel::estimateFromReads(const char*)’: utils.h:147:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 10004 [-Wformat-overflow=] 147 | sprintf(readFs[1], "%s_%s_2.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:147:10, inlined from ‘void PairedEndModel::estimateFromReads(const char*)’ at PairedEndModel.h:245:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void SingleModel::estimateFromReads(const char*)’: utils.h:142:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 142 | sprintf(readFs[0], "%s_%s.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:142:10, inlined from ‘void SingleModel::estimateFromReads(const char*)’ at SingleModel.h:284:20: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void SingleQModel::estimateFromReads(const char*)’: utils.h:142:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 142 | sprintf(readFs[0], "%s_%s.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:142:10, inlined from ‘void SingleQModel::estimateFromReads(const char*)’ at SingleQModel.h:294:20: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -o rsem-simulate-reads simulation.o i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -c -o parseIt.o parseIt.cpp In file included from SamParser.h:13, from parseIt.cpp:27: sam_utils.h: In function ‘void expand_data_size(bam1_t*)’: sam_utils.h:34:17: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 34 | if (b->m_data < b->l_data) { | ~~~~~~~~~~^~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-parse-alignments parseIt.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -ffast-math -c -o EM.o EM.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from LenDist.h:10, from SingleModel.h:17, from EM.cpp:28: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from BamWriter.h:14, from EM.cpp:45: sam_utils.h: In function ‘void expand_data_size(bam1_t*)’: sam_utils.h:34:17: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 34 | if (b->m_data < b->l_data) { | ~~~~~~~~~~^~~~~~~~~~~ BamWriter.h: In constructor ‘BamWriter::BamWriter(const char*, const char*, const char*, Transcripts&, int)’: BamWriter.h:70:16: warning: ignoring return value of ‘int sam_hdr_write(samFile*, const sam_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 70 | sam_hdr_write(out, out_header); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ BamWriter.h: In member function ‘void BamWriter::work(HitWrapper)’: BamWriter.h:101:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 101 | sam_write1(out, out_header, b); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ BamWriter.h: In member function ‘void BamWriter::work(HitWrapper)’: BamWriter.h:136:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 136 | sam_write1(out, out_header, b); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ BamWriter.h:137:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 137 | sam_write1(out, out_header, b2); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘int main(int, char**)’: EM.cpp:635:31: warning: ignoring return value of ‘int system(const char*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 635 | system(command); | ~~~~~~^~~~~~~~~ EM.cpp: In function ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’: EM.cpp:127:26: warning: ‘.dat’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 127 | sprintf(datF, "%s.dat", imdName); | ^~~~ In file included from /usr/i686-linux-gnu/include/stdio.h:970, from /usr/i686-linux-gnu/include/c++/14/cstdio:42, from EM.cpp:3: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’ at EM.cpp:127:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’: EM.cpp:435:45: warning: ‘.ofg’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 435 | sprintf(out_for_gibbs_F, "%s.ofg", imdName); | ^~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’ at EM.cpp:435:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’: EM.cpp:484:28: warning: ‘.theta’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 484 | sprintf(thetaF, "%s.theta", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’ at EM.cpp:484:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’: EM.cpp:282:22: warning: ‘.model’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 282 | sprintf(modelF, "%s.model", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void writeResults(ModelType&, double*) [with ModelType = PairedEndQModel]’ at EM.cpp:282:10, inlined from ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’ at EM.cpp:502:25: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’: EM.cpp:505:37: warning: ‘.transcript.bam’ directive writing 15 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 505 | sprintf(outBamF, "%s.transcript.bam", outName); | ^~~~~~~~~~~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = PairedEndReadQ; HitType = PairedEndHit; ModelType = PairedEndQModel]’ at EM.cpp:505:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 16 and 10020 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’: EM.cpp:127:26: warning: ‘.dat’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 127 | sprintf(datF, "%s.dat", imdName); | ^~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’ at EM.cpp:127:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’: EM.cpp:435:45: warning: ‘.ofg’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 435 | sprintf(out_for_gibbs_F, "%s.ofg", imdName); | ^~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’ at EM.cpp:435:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’: EM.cpp:484:28: warning: ‘.theta’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 484 | sprintf(thetaF, "%s.theta", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’ at EM.cpp:484:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’: EM.cpp:282:22: warning: ‘.model’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 282 | sprintf(modelF, "%s.model", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void writeResults(ModelType&, double*) [with ModelType = SingleQModel]’ at EM.cpp:282:10, inlined from ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’ at EM.cpp:502:25: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’: EM.cpp:505:37: warning: ‘.transcript.bam’ directive writing 15 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 505 | sprintf(outBamF, "%s.transcript.bam", outName); | ^~~~~~~~~~~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = SingleReadQ; HitType = SingleHit; ModelType = SingleQModel]’ at EM.cpp:505:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 16 and 10020 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’: EM.cpp:127:26: warning: ‘.dat’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 127 | sprintf(datF, "%s.dat", imdName); | ^~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’ at EM.cpp:127:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’: EM.cpp:435:45: warning: ‘.ofg’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 435 | sprintf(out_for_gibbs_F, "%s.ofg", imdName); | ^~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’ at EM.cpp:435:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’: EM.cpp:484:28: warning: ‘.theta’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 484 | sprintf(thetaF, "%s.theta", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’ at EM.cpp:484:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’: EM.cpp:282:22: warning: ‘.model’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 282 | sprintf(modelF, "%s.model", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void writeResults(ModelType&, double*) [with ModelType = SingleModel]’ at EM.cpp:282:10, inlined from ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’ at EM.cpp:502:25: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’: EM.cpp:505:37: warning: ‘.transcript.bam’ directive writing 15 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 505 | sprintf(outBamF, "%s.transcript.bam", outName); | ^~~~~~~~~~~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = SingleRead; HitType = SingleHit; ModelType = SingleModel]’ at EM.cpp:505:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 16 and 10020 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’: EM.cpp:127:26: warning: ‘.dat’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 127 | sprintf(datF, "%s.dat", imdName); | ^~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void init(ReadReader**&, HitContainer**&, double**&, ModelType**&) [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’ at EM.cpp:127:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’: EM.cpp:435:45: warning: ‘.ofg’ directive writing 4 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 435 | sprintf(out_for_gibbs_F, "%s.ofg", imdName); | ^~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’ at EM.cpp:435:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 5 and 10009 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’: EM.cpp:484:28: warning: ‘.theta’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 484 | sprintf(thetaF, "%s.theta", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’ at EM.cpp:484:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’: EM.cpp:282:22: warning: ‘.model’ directive writing 6 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 282 | sprintf(modelF, "%s.model", statName); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void writeResults(ModelType&, double*) [with ModelType = PairedEndModel]’ at EM.cpp:282:10, inlined from ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’ at EM.cpp:502:25: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 7 and 10011 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’: EM.cpp:505:37: warning: ‘.transcript.bam’ directive writing 15 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 505 | sprintf(outBamF, "%s.transcript.bam", outName); | ^~~~~~~~~~~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void EM() [with ReadType = PairedEndRead; HitType = PairedEndHit; ModelType = PairedEndModel]’ at EM.cpp:505:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 16 and 10020 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ EM.cpp: In function ‘int main(int, char**)’: EM.cpp:633:49: warning: ‘%s’ directive writing up to 10004 bytes into a region of size 1001 [-Wformat-overflow=] 633 | sprintf(command, "cp %s %s", inpSamF, outBamF); | ^~ ~~~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘int main(int, char**)’ at EM.cpp:633:11: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 10009) into a destination of size 1005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o SamHeader.o SamHeader.cpp i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-run-em EM.o SamHeader.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o tbam2gbam.o tbam2gbam.cpp In file included from BamConverter.h:12, from tbam2gbam.cpp:8: sam_utils.h: In function ‘void expand_data_size(bam1_t*)’: sam_utils.h:34:17: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 34 | if (b->m_data < b->l_data) { | ~~~~~~~~~~^~~~~~~~~~~ BamConverter.h: In constructor ‘BamConverter::BamConverter(const char*, const char*, const char*, Transcripts&, int, const std::string&)’: BamConverter.h:70:22: warning: ignoring return value of ‘int sam_hdr_write(samFile*, const sam_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 70 | sam_hdr_write(out, out_header); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ BamConverter.h: In member function ‘void BamConverter::process()’: BamConverter.h:137:29: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 137 | sam_write1(out, out_header, b); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ BamConverter.h:138:43: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 138 | if (isPaired) sam_write1(out, out_header, b2); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ BamConverter.h: In member function ‘void BamConverter::writeCollapsedLines()’: BamConverter.h:208:35: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 208 | sam_write1(out, out_header, tmp_b); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ BamConverter.h:212:43: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 212 | sam_write1(out, out_header, tmp_b2); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-tbam2gbam tbam2gbam.o SamHeader.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o bam2wig.o bam2wig.cpp i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o wiggle.o wiggle.cpp In file included from wiggle.cpp:8: sam_utils.h: In function ‘void expand_data_size(bam1_t*)’: sam_utils.h:34:17: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 34 | if (b->m_data < b->l_data) { | ~~~~~~~~~~^~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-bam2wig bam2wig.o wiggle.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o bam2readdepth.o bam2readdepth.cpp i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-bam2readdepth bam2readdepth.o wiggle.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o getUnique.o getUnique.cpp In file included from getUnique.cpp:10: sam_utils.h: In function ‘void expand_data_size(bam1_t*)’: sam_utils.h:34:17: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 34 | if (b->m_data < b->l_data) { | ~~~~~~~~~~^~~~~~~~~~~ getUnique.cpp: In function ‘void output()’: getUnique.cpp:29:59: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 29 | for (size_t i = 0; i < arr.size(); ++i) sam_write1(out, header, arr[i]); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ getUnique.cpp: In function ‘int main(int, char**)’: getUnique.cpp:45:22: warning: ignoring return value of ‘int sam_hdr_write(samFile*, const sam_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 45 | sam_hdr_write(out, header); | ~~~~~~~~~~~~~^~~~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-get-unique getUnique.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o samValidator.o samValidator.cpp In file included from samValidator.cpp:11: sam_utils.h: In function ‘void expand_data_size(bam1_t*)’: sam_utils.h:34:17: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 34 | if (b->m_data < b->l_data) { | ~~~~~~~~~~^~~~~~~~~~~ samValidator.cpp: In function ‘bool check_read(bam1_t*, bam_hdr_t*)’: samValidator.cpp:28:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 28 | for (int i = 0; i < b->core.n_cigar; ++i) { | ~~^~~~~~~~~~~~~~~~~ samValidator.cpp:53:38: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘hts_pos_t’ {aka ‘long long int’} [-Wformat=] 53 | printf(" aligns to [%d, %d) of transcript %s, which exceeds the transcript's boundary [0, %d)!\n", | ~^ | | | int | %lld 54 | b->core.pos, bam_endpos(b), header->target_name[b->core.tid], header->target_len[b->core.tid]); | ~~~~~~~~~~~ | | | hts_pos_t {aka long long int} samValidator.cpp:53:42: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘hts_pos_t’ {aka ‘long long int’} [-Wformat=] 53 | printf(" aligns to [%d, %d) of transcript %s, which exceeds the transcript's boundary [0, %d)!\n", | ~^ | | | int | %lld 54 | b->core.pos, bam_endpos(b), header->target_name[b->core.tid], header->target_len[b->core.tid]); | ~~~~~~~~~~~~~ | | | hts_pos_t {aka long long int} samValidator.cpp: In function ‘int main(int, char**)’: samValidator.cpp:145:82: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘hts_pos_t’ {aka ‘long long int’} [-Wformat=] 145 | printf("\nPaired-end read %s aligns to [%d, %d) of transcript %s, which exceeds the transcript's boundary [0, %d)!\n", | ~^ | | | int | %lld 146 | bam_get_qname(b), tb->core.pos, tb->core.pos + abs(tb->core.isize), header->target_name[tb->core.tid], header->target_len[tb->core.tid]); | ~~~~~~~~~~~~ | | | hts_pos_t {aka long long int} samValidator.cpp:145:86: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘hts_pos_t’ {aka ‘long long int’} [-Wformat=] 145 | printf("\nPaired-end read %s aligns to [%d, %d) of transcript %s, which exceeds the transcript's boundary [0, %d)!\n", | ~^ | | | int | %lld 146 | bam_get_qname(b), tb->core.pos, tb->core.pos + abs(tb->core.isize), header->target_name[tb->core.tid], header->target_len[tb->core.tid]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | | | hts_pos_t {aka long long int} samValidator.cpp:176:83: warning: ‘creadlen2’ may be used uninitialized [-Wmaybe-uninitialized] 176 | isValid = (creadlen == readlen && (!ispaired || creadlen2 == readlen2)); | ~~~~~~~~~~^~~~~~~~~~~ samValidator.cpp:78:36: note: ‘creadlen2’ was declared here 78 | int creadlen = 0, readlen, creadlen2, readlen2; | ^~~~~~~~~ samValidator.cpp:176:83: warning: ‘readlen2’ may be used uninitialized [-Wmaybe-uninitialized] 176 | isValid = (creadlen == readlen && (!ispaired || creadlen2 == readlen2)); | ~~~~~~~~~~^~~~~~~~~~~ samValidator.cpp:78:47: note: ‘readlen2’ was declared here 78 | int creadlen = 0, readlen, creadlen2, readlen2; | ^~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-sam-validator samValidator.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -c -o scanForPairedEndReads.o scanForPairedEndReads.cpp In file included from scanForPairedEndReads.cpp:11: sam_utils.h: In function ‘void expand_data_size(bam1_t*)’: sam_utils.h:34:17: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 34 | if (b->m_data < b->l_data) { | ~~~~~~~~~~^~~~~~~~~~~ scanForPairedEndReads.cpp: In function ‘int main(int, char**)’: scanForPairedEndReads.cpp:66:22: warning: ignoring return value of ‘int sam_hdr_write(samFile*, const sam_hdr_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 66 | sam_hdr_write(out, header); | ~~~~~~~~~~~~~^~~~~~~~~~~~~ scanForPairedEndReads.cpp:94:72: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 94 | for (size_t i = 0; i < arr_both.size(); i++) { sam_write1(out, header, arr_both[i]); bam_destroy1(arr_both[i]); } | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:100:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 100 | sam_write1(out, header, arr_partial_1.back()); bam_destroy1(arr_partial_1.back()); arr_partial_1.pop_back(); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:101:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 101 | sam_write1(out, header, arr_partial_2.back()); bam_destroy1(arr_partial_2.back()); arr_partial_2.pop_back(); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:104:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 104 | sam_write1(out, header, arr_partial_1.back()); bam_destroy1(arr_partial_1.back()); arr_partial_1.pop_back(); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:105:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 105 | sam_write1(out, header, arr_partial_unknown.back()); bam_destroy1(arr_partial_unknown.back()); arr_partial_unknown.pop_back(); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:108:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 108 | sam_write1(out, header, arr_partial_2.back()); bam_destroy1(arr_partial_2.back()); arr_partial_2.pop_back(); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:109:27: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 109 | sam_write1(out, header, arr_partial_unknown.back()); bam_destroy1(arr_partial_unknown.back()); arr_partial_unknown.pop_back(); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:114:25: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 114 | sam_write1(out, header, arr_partial_unknown.back()); bam_destroy1(arr_partial_unknown.back()); arr_partial_unknown.pop_back(); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:118:23: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 118 | sam_write1(out, header, b); | ~~~~~~~~~~^~~~~~~~~~~~~~~~ scanForPairedEndReads.cpp:120:25: warning: ignoring return value of ‘int sam_write1(samFile*, const sam_hdr_t*, const bam1_t*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 120 | sam_write1(out, header, b); | ~~~~~~~~~~^~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-scan-for-paired-end-reads scanForPairedEndReads.o -lhts -lz i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -ffast-math -c -o Gibbs.o Gibbs.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from LenDist.h:10, from SingleModel.h:17, from Gibbs.cpp:15: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ Gibbs.cpp: In function ‘void init()’: Gibbs.cpp:214:26: warning: ‘.countvectors’ directive writing 13 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 214 | sprintf(cvsF, "%s.countvectors", imdName); | ^~~~~~~~~~~~~ In file included from /usr/i686-linux-gnu/include/stdio.h:970, from /usr/i686-linux-gnu/include/c++/14/cstdio:42, from Gibbs.cpp:1: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void init()’ at Gibbs.cpp:214:9: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 14 and 10018 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ Gibbs.cpp: In function ‘void init()’: Gibbs.cpp:225:34: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 225 | sprintf(outF, "%s%d", cvsF, i); | ^~ Gibbs.cpp:225:31: note: directive argument in the range [0, 2147483646] 225 | sprintf(outF, "%s%d", cvsF, i); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void init()’ at Gibbs.cpp:225:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 10015 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ In file included from Gibbs.cpp:10: utils.h: In member function ‘void PairedEndModel::estimateFromReads(const char*)’: utils.h:146:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 146 | sprintf(readFs[0], "%s_%s_1.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:146:10, inlined from ‘void PairedEndModel::estimateFromReads(const char*)’ at PairedEndModel.h:245:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 7 or more bytes (assuming 30021) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndModel::estimateFromReads(const char*)’: utils.h:147:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 10004 [-Wformat-overflow=] 147 | sprintf(readFs[1], "%s_%s_2.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:147:10, inlined from ‘void PairedEndModel::estimateFromReads(const char*)’ at PairedEndModel.h:245:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndQModel::estimateFromReads(const char*)’: utils.h:146:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 146 | sprintf(readFs[0], "%s_%s_1.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:146:10, inlined from ‘void PairedEndQModel::estimateFromReads(const char*)’ at PairedEndQModel.h:251:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 7 or more bytes (assuming 30021) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndQModel::estimateFromReads(const char*)’: utils.h:147:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 10004 [-Wformat-overflow=] 147 | sprintf(readFs[1], "%s_%s_2.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:147:10, inlined from ‘void PairedEndQModel::estimateFromReads(const char*)’ at PairedEndQModel.h:251:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void SingleModel::estimateFromReads(const char*)’: utils.h:142:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 142 | sprintf(readFs[0], "%s_%s.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:142:10, inlined from ‘void SingleModel::estimateFromReads(const char*)’ at SingleModel.h:284:20: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void SingleQModel::estimateFromReads(const char*)’: utils.h:142:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 142 | sprintf(readFs[0], "%s_%s.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:142:10, inlined from ‘void SingleQModel::estimateFromReads(const char*)’ at SingleQModel.h:294:20: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-run-gibbs Gibbs.o -lhts i686-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=gnu++11 -Wall -I. -I/usr/include -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -ffast-math -c -o calcCI.o calcCI.cpp In file included from /usr/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /usr/include/boost/math/special_functions/math_fwd.hpp:29, from /usr/include/boost/math/special_functions/erf.hpp:13, from /usr/include/boost/math/distributions/normal.hpp:19, from LenDist.h:10, from SingleModel.h:17, from calcCI.cpp:16: /usr/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ In file included from calcCI.cpp:11: utils.h: In member function ‘void PairedEndModel::estimateFromReads(const char*)’: utils.h:146:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 146 | sprintf(readFs[0], "%s_%s_1.%s", readFN, tags[tagType], suffix); | ^~ In file included from /usr/i686-linux-gnu/include/stdio.h:970, from /usr/i686-linux-gnu/include/c++/14/cstdio:42, from calcCI.cpp:2: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:146:10, inlined from ‘void PairedEndModel::estimateFromReads(const char*)’ at PairedEndModel.h:245:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 7 or more bytes (assuming 30021) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndModel::estimateFromReads(const char*)’: utils.h:147:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 10004 [-Wformat-overflow=] 147 | sprintf(readFs[1], "%s_%s_2.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:147:10, inlined from ‘void PairedEndModel::estimateFromReads(const char*)’ at PairedEndModel.h:245:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndQModel::estimateFromReads(const char*)’: utils.h:146:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 146 | sprintf(readFs[0], "%s_%s_1.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:146:10, inlined from ‘void PairedEndQModel::estimateFromReads(const char*)’ at PairedEndQModel.h:251:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 7 or more bytes (assuming 30021) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void PairedEndQModel::estimateFromReads(const char*)’: utils.h:147:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 10004 [-Wformat-overflow=] 147 | sprintf(readFs[1], "%s_%s_2.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:147:10, inlined from ‘void PairedEndQModel::estimateFromReads(const char*)’ at PairedEndQModel.h:251:23: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ calcCI.cpp: In function ‘void sample_theta_vectors_from_count_vectors() [with ModelType = PairedEndQModel]’: calcCI.cpp:183:34: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~ calcCI.cpp:183:31: note: directive argument in the range [0, 2147483646] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void sample_theta_vectors_from_count_vectors() [with ModelType = PairedEndQModel]’ at calcCI.cpp:183:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 10015 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ calcCI.cpp: In function ‘void sample_theta_vectors_from_count_vectors() [with ModelType = PairedEndQModel]’: calcCI.cpp:183:36: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void sample_theta_vectors_from_count_vectors() [with ModelType = PairedEndQModel]’ at calcCI.cpp:183:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 10006 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ calcCI.cpp: In function ‘void sample_theta_vectors_from_count_vectors() [with ModelType = PairedEndModel]’: calcCI.cpp:183:34: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~ calcCI.cpp:183:31: note: directive argument in the range [0, 2147483646] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void sample_theta_vectors_from_count_vectors() [with ModelType = PairedEndModel]’ at calcCI.cpp:183:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 10015 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ calcCI.cpp: In function ‘void sample_theta_vectors_from_count_vectors() [with ModelType = SingleQModel]’: calcCI.cpp:183:34: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~ calcCI.cpp:183:31: note: directive argument in the range [0, 2147483646] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void sample_theta_vectors_from_count_vectors() [with ModelType = SingleQModel]’ at calcCI.cpp:183:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 10015 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ calcCI.cpp: In function ‘void sample_theta_vectors_from_count_vectors() [with ModelType = SingleQModel]’: calcCI.cpp:183:36: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void sample_theta_vectors_from_count_vectors() [with ModelType = SingleQModel]’ at calcCI.cpp:183:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 10006 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ calcCI.cpp: In function ‘void sample_theta_vectors_from_count_vectors() [with ModelType = SingleModel]’: calcCI.cpp:183:34: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size between 1 and 10005 [-Wformat-overflow=] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~ calcCI.cpp:183:31: note: directive argument in the range [0, 2147483646] 183 | sprintf(inpF, "%s%d", cvsF, i); | ^~~~~~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void sample_theta_vectors_from_count_vectors() [with ModelType = SingleModel]’ at calcCI.cpp:183:10: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 2 and 10015 bytes into a destination of size 10005 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void SingleModel::estimateFromReads(const char*)’: utils.h:142:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 142 | sprintf(readFs[0], "%s_%s.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:142:10, inlined from ‘void SingleModel::estimateFromReads(const char*)’ at SingleModel.h:284:20: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ utils.h: In member function ‘void SingleQModel::estimateFromReads(const char*)’: utils.h:142:40: warning: ‘%s’ directive writing up to 30014 bytes into a region of size 20009 [-Wformat-overflow=] 142 | sprintf(readFs[0], "%s_%s.%s", readFN, tags[tagType], suffix); | ^~ In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘void genReadFileNames(const char*, int, int, int&, char (*)[10005])’ at utils.h:142:10, inlined from ‘void SingleQModel::estimateFromReads(const char*)’ at SingleQModel.h:294:20: /usr/i686-linux-gnu/include/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output 5 or more bytes (assuming 30019) into a destination of size 20010 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -Wl,-z,relro -Wl,-z,now -pthread -o rsem-calculate-credibility-intervals calcCI.o -lhts make[2]: Leaving directory '/<>' for prog in convert-sam-for-rsem rsem-calculate-expression \ rsem-control-fdr rsem-generate-ngvector \ rsem-plot-transcript-wiggles rsem-prepare-reference \ rsem-run-ebseq; do pod2man ${prog} debian/${prog}.1; done help2man ./rsem-gff3-to-gtf --no-info --version-string="1.3.3+dfsg" \ --name 'Convert GFF3 files to GTF files.' > \ debian/rsem-gff3-to-gtf.1 help2man ./rsem-bam2wig --no-info --version-string="1.3.3+dfsg" \ --name 'Convert BAM files to wiggle files.' > \ debian/rsem-bam2wig.1 help2man: can't get `--help' info from ./rsem-bam2wig Try `--no-discard-stderr' if option outputs to stderr make[1]: *** [debian/rules:16: override_dh_auto_build] Error 126 make[1]: Leaving directory '/<>' make: *** [debian/rules:10: binary-arch] Error 2 dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2025-05-29T22:56:54Z +------------------------------------------------------------------------------+ | Finished Timed Build Commands | +------------------------------------------------------------------------------+ rm -Rf /<>/ ------------------------------------------ I: Finished running 'rm -Rf /<>/'. Finished processing commands. -------------------------------------------------------------------------------- Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Build-Space: n/a Build-Time: 405 Distribution: unstable Fail-Stage: build Foreign Architectures: i386 Host Architecture: i386 Install-Time: 66 Job: rsem_1.3.3+dfsg-3 Machine Architecture: arm64 Package: rsem Package-Time: 520 Source-Version: 1.3.3+dfsg-3 Space: n/a Status: attempted Version: 1.3.3+dfsg-3 -------------------------------------------------------------------------------- Finished at 2025-05-29T22:56:54Z Build needed 00:08:40, no disk space