sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | maq 0.7.1-8 (arm64) Mon, 21 Oct 2019 15:20:49 +0000 | +==============================================================================+ Package: maq Version: 0.7.1-8 Source Version: 0.7.1-8 Distribution: unstable Machine Architecture: amd64 Host Architecture: arm64 Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-17096790-8b0c-48b3-9bd2-9e35163e24e3' with '<>' I: NOTICE: Log filtering will replace 'build/maq-DgUyOO/resolver-gffppZ' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [139 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2019-10-21-0816.32.pdiff [6172 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2019-10-21-1419.21.pdiff [23.7 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2019-10-21-1419.21.pdiff [23.7 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-10-21-0816.32.pdiff [19.4 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-10-21-1419.21.pdiff [26.5 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-10-21-1419.21.pdiff [26.5 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main arm64 Packages [8064 kB] Fetched 8334 kB in 2s (4161 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: binutils binutils-common binutils-x86-64-linux-gnu libbinutils linux-libc-dev 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 5220 kB of archives. After this operation, 249 kB disk space will be freed. Get:1 http://debian.oregonstate.edu/debian unstable/main amd64 binutils amd64 2.33.1-2 [58.0 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-x86-64-linux-gnu amd64 2.33.1-2 [1611 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libbinutils amd64 2.33.1-2 [469 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-common amd64 2.33.1-2 [2087 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev amd64 5.3.7-1 [994 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 5220 kB in 0s (84.0 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14991 files and directories currently installed.) Preparing to unpack .../binutils_2.33.1-2_amd64.deb ... Unpacking binutils (2.33.1-2) over (2.33.1-1) ... Preparing to unpack .../binutils-x86-64-linux-gnu_2.33.1-2_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.33.1-2) over (2.33.1-1) ... Preparing to unpack .../libbinutils_2.33.1-2_amd64.deb ... Unpacking libbinutils:amd64 (2.33.1-2) over (2.33.1-1) ... Preparing to unpack .../binutils-common_2.33.1-2_amd64.deb ... Unpacking binutils-common:amd64 (2.33.1-2) over (2.33.1-1) ... Preparing to unpack .../linux-libc-dev_5.3.7-1_amd64.deb ... Unpacking linux-libc-dev:amd64 (5.3.7-1) over (5.2.17-1+b1) ... Setting up binutils-common:amd64 (2.33.1-2) ... Setting up linux-libc-dev:amd64 (5.3.7-1) ... Setting up libbinutils:amd64 (2.33.1-2) ... Setting up binutils-x86-64-linux-gnu (2.33.1-2) ... Setting up binutils (2.33.1-2) ... Processing triggers for libc-bin (2.29-2) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'maq' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/maq.git Please use: git clone https://salsa.debian.org/med-team/maq.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 411 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main maq 0.7.1-8 (dsc) [1943 B] Get:2 http://debian.oregonstate.edu/debian unstable/main maq 0.7.1-8 (tar) [398 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main maq 0.7.1-8 (diff) [11.1 kB] Fetched 411 kB in 0s (8828 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/maq-DgUyOO/maq-0.7.1' with '<>' I: NOTICE: Log filtering will replace 'build/maq-DgUyOO' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper (>= 11~), zlib1g-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64, libc-dev:arm64, libstdc++-dev:arm64 Filtered Build-Depends: debhelper (>= 11~), zlib1g-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64, libc-dev:arm64, libstdc++-dev:arm64 dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [409 B] Get:5 copy:/<>/apt_archive ./ Packages [499 B] Fetched 1865 B in 0s (98.4 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdmainutils cpp-9-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-9-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-9-aarch64-linux-gnu gcc-9-aarch64-linux-gnu-base gcc-9-base:arm64 gcc-9-cross-base gcc-aarch64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan5:arm64 libasan5-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libbsd0 libc6:arm64 libc6-arm64-cross libc6-dev:arm64 libc6-dev-arm64-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:arm64 libgcc-9-dev-arm64-cross libgcc1:arm64 libgcc1-arm64-cross libglib2.0-0 libgomp1:arm64 libgomp1-arm64-cross libicu63 libio-string-perl libitm1:arm64 libitm1-arm64-cross liblocale-gettext-perl liblsan0:arm64 liblsan0-arm64-cross libmagic-mgc libmagic1 libncurses6 libpipeline1 libsigsegv2 libstdc++-9-dev:arm64 libstdc++-9-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libsub-override-perl libtool libtsan0:arm64 libtsan0-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:arm64 linux-libc-dev-arm64-cross m4 man-db po-debconf sensible-utils ucf zlib1g:arm64 zlib1g-dev:arm64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc wamerican | wordlist whois vacation gcc-9-locales cpp-doc dh-make binutils-multiarch gcc-9-doc libstdc++6-9-dbg-arm64-cross libgcc1-dbg-arm64-cross libgomp1-dbg-arm64-cross libitm1-dbg-arm64-cross libatomic1-dbg-arm64-cross libasan5-dbg-arm64-cross liblsan0-dbg-arm64-cross libtsan0-dbg-arm64-cross libubsan1-dbg-arm64-cross libquadmath0-dbg-arm64-cross manpages-dev flex bison gdb-aarch64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:arm64 libc-l10n:arm64 locales:arm64 manpages-dev:arm64 libstdc++-9-doc:arm64 libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:arm64 libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgpm2 libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-aarch64-linux-gnu bsdmainutils cpp-9-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-9-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-9-aarch64-linux-gnu gcc-9-aarch64-linux-gnu-base gcc-9-base:arm64 gcc-9-cross-base gcc-aarch64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan5:arm64 libasan5-arm64-cross libatomic1:arm64 libatomic1-arm64-cross libbsd0 libc6:arm64 libc6-arm64-cross libc6-dev:arm64 libc6-dev-arm64-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:arm64 libgcc-9-dev-arm64-cross libgcc1:arm64 libgcc1-arm64-cross libglib2.0-0 libgomp1:arm64 libgomp1-arm64-cross libicu63 libio-string-perl libitm1:arm64 libitm1-arm64-cross liblocale-gettext-perl liblsan0:arm64 liblsan0-arm64-cross libmagic-mgc libmagic1 libncurses6 libpipeline1 libsigsegv2 libstdc++-9-dev:arm64 libstdc++-9-dev-arm64-cross libstdc++6:arm64 libstdc++6-arm64-cross libsub-override-perl libtool libtsan0:arm64 libtsan0-arm64-cross libubsan1:arm64 libubsan1-arm64-cross libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:arm64 linux-libc-dev-arm64-cross m4 man-db po-debconf sbuild-build-depends-main-dummy:arm64 sensible-utils ucf zlib1g:arm64 zlib1g-dev:arm64 0 upgraded, 93 newly installed, 0 to remove and 0 not upgraded. Need to get 63.0 MB of archives. After this operation, 263 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [916 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.10.0-1 [107 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-3 [916 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.8.7-3 [1300 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-3+b5 [18.9 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main arm64 gcc-9-base arm64 9.2.1-9 [193 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.37-5 [253 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.37-5 [119 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.37-5 [67.1 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-2 [203 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11 [341 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.1-4 [771 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-aarch64-linux-gnu amd64 2.33.1-2 [2775 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-aarch64-linux-gnu-base amd64 9.2.1-8cross1 [193 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-aarch64-linux-gnu amd64 9.2.1-8cross1 [6536 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-aarch64-linux-gnu amd64 4:9.2.1-3.1 [16.7 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.2.1-8cross1 [188 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-arm64-cross all 2.29-1cross7 [1253 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc1-arm64-cross all 1:9.2.1-8cross1 [34.0 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-arm64-cross all 9.2.1-8cross1 [76.6 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libitm1-arm64-cross all 9.2.1-8cross1 [24.3 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-arm64-cross all 9.2.1-8cross1 [8640 B] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-arm64-cross all 9.2.1-8cross1 [347 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 liblsan0-arm64-cross all 9.2.1-8cross1 [122 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libtsan0-arm64-cross all 9.2.1-8cross1 [267 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-arm64-cross all 9.2.1-8cross1 [416 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-arm64-cross all 9.2.1-8cross1 [117 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-arm64-cross all 9.2.1-8cross1 [888 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-aarch64-linux-gnu amd64 9.2.1-8cross1 [6896 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-aarch64-linux-gnu amd64 4:9.2.1-3.1 [1460 B] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-arm64-cross all 5.2.9-2cross7 [1310 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-arm64-cross all 2.29-1cross7 [2273 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-arm64-cross all 9.2.1-8cross1 [1632 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-aarch64-linux-gnu amd64 9.2.1-8cross1 [7113 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 g++-aarch64-linux-gnu amd64 4:9.2.1-3.1 [1180 B] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000001-1 [51.9 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.2-2 [8301 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-7+b3 [687 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-1+b1 [344 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.29-1 [67.4 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-arm64 all 12.8 [6644 B] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-11 [547 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.67-1 [104 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.6.1-1 [23.5 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.6.1-1 [14.4 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-1 [81.8 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 12.7 [173 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.62.1-1 [1317 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.1+20190803-1 [102 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 12.7 [995 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main arm64 libgcc1 arm64 1:9.2.1-9 [34.1 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main arm64 libc6 arm64 2.29-2 [2464 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main arm64 libasan5 arm64 9.2.1-9 [354 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main arm64 libatomic1 arm64 9.2.1-9 [8836 B] Get:82 http://debian.oregonstate.edu/debian unstable/main arm64 linux-libc-dev arm64 5.3.7-1 [975 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main arm64 libc6-dev arm64 2.29-2 [2287 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main arm64 libgomp1 arm64 9.2.1-9 [78.5 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main arm64 libitm1 arm64 9.2.1-9 [24.6 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main arm64 liblsan0 arm64 9.2.1-9 [122 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main arm64 libtsan0 arm64 9.2.1-9 [274 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main arm64 libstdc++6 arm64 9.2.1-9 [454 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main arm64 libubsan1 arm64 9.2.1-9 [117 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main arm64 libgcc-9-dev arm64 9.2.1-9 [884 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main arm64 libstdc++-9-dev arm64 9.2.1-9 [1655 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main arm64 zlib1g arm64 1:1.2.11.dfsg-1+b1 [88.4 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-1+b1 [208 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 63.0 MB in 1s (67.6 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 14989 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.10.0-1_amd64.deb ... Unpacking libbsd0:amd64 (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../02-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_amd64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.1-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.7-3_amd64.deb ... Unpacking man-db (2.8.7-3) ... 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Setting up file (1:5.37-5) ... Setting up libyaml-perl (1.29-1) ... Setting up libicu63:amd64 (63.2-2) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up cpp-aarch64-linux-gnu (4:9.2.1-3.1) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3) ... Setting up libncurses6:amd64 (6.1+20190803-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libc6-arm64-cross (2.29-1cross7) ... Setting up autopoint (0.19.8.1-9) ... Setting up gcc-9-cross-base (9.2.1-8cross1) ... Setting up linux-libc-dev-arm64-cross (5.2.9-2cross7) ... Setting up sensible-utils (0.0.12) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+b3) ... Setting up liblocale-gettext-perl (1.07-3+b5) ... Setting up gcc-9-base:arm64 (9.2.1-9) ... Setting up libatomic1-arm64-cross (9.2.1-8cross1) ... Setting up libgcc1-arm64-cross (1:9.2.1-8cross1) ... Setting up libfile-stripnondeterminism-perl (1.6.1-1) ... Setting up liblsan0-arm64-cross (9.2.1-8cross1) ... Setting up libgomp1-arm64-cross (9.2.1-8cross1) ... Setting up libtool (2.4.6-11) ... Setting up libtsan0-arm64-cross (9.2.1-8cross1) ... Setting up m4 (1.4.18-2) ... Setting up libc6-dev-arm64-cross (2.29-1cross7) ... Setting up libasan5-arm64-cross (9.2.1-8cross1) ... Setting up libstdc++6-arm64-cross (9.2.1-8cross1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libcroco3:amd64 (0.6.13-1) ... Setting up libitm1-arm64-cross (9.2.1-8cross1) ... Setting up ucf (3.0038+nmu1) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.13-1) ... Setting up groff-base (1.22.4-3) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-9) ... Setting up libubsan1-arm64-cross (9.2.1-8cross1) ... Setting up libgcc-9-dev-arm64-cross (9.2.1-8cross1) ... Setting up man-db (2.8.7-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up intltool-debian (0.35.0+20060710.5) ... Setting up gcc-9-aarch64-linux-gnu (9.2.1-8cross1) ... Setting up libxml-libxml-perl (2.0134+dfsg-1+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libstdc++-9-dev-arm64-cross (9.2.1-8cross1) ... Setting up gcc-aarch64-linux-gnu (4:9.2.1-3.1) ... Setting up po-debconf (1.0.21) ... Setting up g++-9-aarch64-linux-gnu (9.2.1-8cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-aarch64-linux-gnu (4:9.2.1-3.1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3) ... Setting up dpkg-cross (2.6.15-3) ... Setting up crossbuild-essential-arm64 (12.8) ... Setting up libc6:arm64 (2.29-2) ... Setting up libc6-dev:arm64 (2.29-2) ... Setting up libitm1:arm64 (9.2.1-9) ... Setting up libgcc1:arm64 (1:9.2.1-9) ... Setting up zlib1g:arm64 (1:1.2.11.dfsg-1+b1) ... Setting up libgomp1:arm64 (9.2.1-9) ... Setting up dh-autoreconf (19) ... Setting up libasan5:arm64 (9.2.1-9) ... Setting up libatomic1:arm64 (9.2.1-9) ... Setting up dh-strip-nondeterminism (1.6.1-1) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-1+b1) ... Setting up libstdc++6:arm64 (9.2.1-9) ... Setting up liblsan0:arm64 (9.2.1-9) ... Setting up libtsan0:arm64 (9.2.1-9) ... Setting up debhelper (12.7) ... Setting up libubsan1:arm64 (9.2.1-9) ... Setting up libgcc-9-dev:arm64 (9.2.1-9) ... Setting up libstdc++-9-dev:arm64 (9.2.1-9) ... Setting up sbuild-build-depends-main-dummy:arm64 (0.invalid.0) ... Processing triggers for libc-bin (2.29-2) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-8-amd64 #1 SMP Debian 4.9.144-3.1 (2019-02-19) amd64 (x86_64) Toolchain package versions: binutils_2.33.1-2 dpkg-dev_1.19.7 g++-8_8.3.0-23 g++-9_9.2.1-9 gcc-8_8.3.0-23 gcc-9_9.2.1-9 libc6-dev_2.29-2 libstdc++-8-dev_8.3.0-23 libstdc++-9-dev_9.2.1-9 libstdc++-9-dev-arm64-cross_9.2.1-8cross1 libstdc++6_9.2.1-9 libstdc++6-arm64-cross_9.2.1-8cross1 linux-libc-dev_5.3.7-1 Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.46 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Version: 0.7.1-8 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Charles Plessy Homepage: http://maq.sourceforge.net/ Standards-Version: 4.1.5 Vcs-Browser: https://salsa.debian.org/med-team/maq Vcs-Git: https://salsa.debian.org/med-team/maq.git Testsuite: autopkgtest Build-Depends: debhelper (>= 11~), zlib1g-dev Package-List: maq deb science optional arch=any Checksums-Sha1: ca51faa2f2a24e81fe7a38d75613a84433c69af8 398368 maq_0.7.1.orig.tar.gz a7b7d738044f36c0bf426ff89862e050283364e7 11148 maq_0.7.1-8.debian.tar.xz Checksums-Sha256: efb8d66ae9319b260db7e56fd17d2f2299f1dee84522848a2205d9f069eb00ba 398368 maq_0.7.1.orig.tar.gz 0bbb5817aa8fef10e838d46c0412265d613c6925ee66a0a3b532402b7980b6da 11148 maq_0.7.1-8.debian.tar.xz Files: 894adf6f73abee5767d55a1fb623004f 398368 maq_0.7.1.orig.tar.gz 57a5027e7264c83facd2bab7ac69bdc0 11148 maq_0.7.1-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAltMotMRHHRpbGxlQGRl 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F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./maq_0.7.1-8.dsc dpkg-source: info: extracting maq in /<> dpkg-source: info: unpacking maq_0.7.1.orig.tar.gz dpkg-source: info: unpacking maq_0.7.1-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_prevent_-64_option.patch dpkg-source: info: applying gcc-4.7.patch dpkg-source: info: applying mayhem.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.arm64 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-17096790-8b0c-48b3-9bd2-9e35163e24e3 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aarm64 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package maq dpkg-buildpackage: info: source version 0.7.1-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type aarch64-linux-gnu does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a configure.ac:6: installing './compile' dh_auto_configure -a ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --libexecdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --host=aarch64-linux-gnu configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-dependency-tracking configure: loading site script /etc/dpkg-cross/cross-config.arm64 Reading Cross Config Cache (/etc/dpkg-cross/cross-config.arm64) Reading /etc/dpkg-cross/cross-config.cache checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for aarch64-linux-gnu-strip... aarch64-linux-gnu-strip checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking build system type... x86_64-pc-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking for aarch64-linux-gnu-gcc... aarch64-linux-gnu-gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... yes checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether aarch64-linux-gnu-gcc accepts -g... yes checking for aarch64-linux-gnu-gcc option to accept ISO C89... none needed checking whether aarch64-linux-gnu-gcc understands -c and -o together... yes checking for aarch64-linux-gnu-g++... aarch64-linux-gnu-g++ checking whether we are using the GNU C++ compiler... yes checking whether aarch64-linux-gnu-g++ accepts -g... yes checking how to run the C preprocessor... aarch64-linux-gnu-gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating config.h configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-dependency-tracking dh_auto_build -a make -j1 make[1]: Entering directory '/<>' make all-am make[2]: Entering directory '/<>' aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.c aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o const.o const.c aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o seq.o seq.c aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o bfa.o bfa.c bfa.c: In function ‘nst_load_bfa1’: bfa.c:31:2: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] 31 | fread(bfa1->name, sizeof(char), len, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bfa.c:32:2: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] 32 | fread(&bfa1->ori_len, sizeof(int), 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bfa.c:33:2: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] 33 | fread(&bfa1->len, sizeof(int), 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bfa.c:35:2: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] 35 | fread(bfa1->seq, sizeof(bit64_t), bfa1->len, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bfa.c:37:2: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] 37 | fread(bfa1->mask, sizeof(bit64_t), bfa1->len, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bfa.c: In function ‘nst_bfa_len’: bfa.c:46:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] 46 | fread(&len, sizeof(int), 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bfa.c:48:3: warning: ignoring return value of ‘fread’, declared with attribute warn_unused_result [-Wunused-result] 48 | fread(&len, sizeof(int), 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o read.o read.cc aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fasta2bfa.o fasta2bfa.c aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fastq2bfq.o fastq2bfq.c fastq2bfq.c: In function ‘fastq2bfq’: fastq2bfq.c:30:5: warning: assignment to ‘struct gzFile_s **’ from incompatible pointer type ‘gzFile’ {aka ‘struct gzFile_s *’} [-Wincompatible-pointer-types] 30 | fp = gzopen(str, "w"); | ^ fastq2bfq.c:36:7: warning: assignment to ‘struct gzFile_s **’ from incompatible pointer type ‘gzFile’ {aka ‘struct gzFile_s *’} [-Wincompatible-pointer-types] 36 | fp = gzopen(str, "w"); | ^ fastq2bfq.c:47:11: warning: passing argument 1 of ‘gzwrite’ from incompatible pointer type [-Wincompatible-pointer-types] 47 | gzwrite(fp, &i, sizeof(int)); | ^~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from fastq2bfq.c:1: /usr/include/zlib.h:1446:29: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1446 | ZEXTERN int ZEXPORT gzwrite OF((gzFile file, | ^~ fastq2bfq.c:48:11: warning: passing argument 1 of ‘gzwrite’ from incompatible pointer type [-Wincompatible-pointer-types] 48 | gzwrite(fp, name, sizeof(char) * i); | ^~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from fastq2bfq.c:1: /usr/include/zlib.h:1446:29: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1446 | ZEXTERN int ZEXPORT gzwrite OF((gzFile file, | ^~ fastq2bfq.c:49:11: warning: passing argument 1 of ‘gzwrite’ from incompatible pointer type [-Wincompatible-pointer-types] 49 | gzwrite(fp, &l, sizeof(int)); | ^~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from fastq2bfq.c:1: /usr/include/zlib.h:1446:29: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1446 | ZEXTERN int ZEXPORT gzwrite OF((gzFile file, | ^~ fastq2bfq.c:50:11: warning: passing argument 1 of ‘gzwrite’ from incompatible pointer type [-Wincompatible-pointer-types] 50 | gzwrite(fp, seq.s, sizeof(char) * l); | ^~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from fastq2bfq.c:1: /usr/include/zlib.h:1446:29: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1446 | ZEXTERN int ZEXPORT gzwrite OF((gzFile file, | ^~ fastq2bfq.c:53:12: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [-Wincompatible-pointer-types] 53 | gzclose(fp); | ^~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from fastq2bfq.c:1: /usr/include/zlib.h:1630:32: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1630 | ZEXTERN int ZEXPORT gzclose OF((gzFile file)); | ^~ fastq2bfq.c:62:11: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [-Wincompatible-pointer-types] 62 | gzclose(fp); | ^~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from fastq2bfq.c:1: /usr/include/zlib.h:1630:32: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1630 | ZEXTERN int ZEXPORT gzclose OF((gzFile file)); | ^~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o merge.o merge.cc aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o match_aux.o match_aux.cc aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o match.o match.cc match.cc: In function ‘int alt_cal_mm(bit64_t)’: match.cc:58:8: warning: suggest parentheses around ‘+’ in operand of ‘&’ [-Wparentheses] 58 | x = x + (x >> 4) & 0x0F0F0F0F0F0F0F0FLLU; | ~~^~~~~~~~~~ match.cc:61:8: warning: suggest parentheses around ‘+’ in operand of ‘&’ [-Wparentheses] 61 | x = x + (x >> 32) & 0x0000007F; | ~~^~~~~~~~~~~ match.cc: In function ‘int alt_cal_err(bit64_t, bit64_t)’: match.cc:67:8: warning: suggest parentheses around ‘+’ in operand of ‘&’ [-Wparentheses] 67 | x = x + (x >> 4) & 0x0F0F0F0F0F0F0F0FLLU; | ~~^~~~~~~~~~ match.cc:70:8: warning: suggest parentheses around ‘+’ in operand of ‘&’ [-Wparentheses] 70 | x = x + (x >> 32) & 0x0000007F; | ~~^~~~~~~~~~~ match.cc: In function ‘void process_candidate(const required_option_t*, int, bit64_t, match_data_t*, ref_canlist_t*)’: match.cc:284:39: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘struct ref_canlist_t’; use assignment or value-initialization instead [-Wclass-memaccess] 284 | memset(list, 0, sizeof(ref_canlist_t)); | ^ match.cc:49:16: note: ‘struct ref_canlist_t’ declared here 49 | typedef struct { | ^ match.cc: In function ‘void match_search(const match_aux_t*, match_data_t*, const nst_bfa1_t*, int, ref_canlist_t*)’: match.cc:292:10: warning: variable ‘n_reads’ set but not used [-Wunused-but-set-variable] 292 | bit32_t n_reads; | ^~~~~~~ match.cc: In function ‘int ma_match(int, char**)’: match.cc:525:10: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] 525 | fscanf(tmpfp, "%s", adaptor); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sort_mapping.o sort_mapping.cc sort_mapping.cc: In function ‘int ma_make_pair(const match_aux_t*, const match_info_t*, const match_info_t*, pair_info_t*)’: sort_mapping.cc:59:61: warning: suggest parentheses around arithmetic in operand of ‘^’ [-Wparentheses] 59 | p->i1 = (((m1->i1>>24)+(m2->i1>>24))<<24) | (m1->i1^m2->i1&0xffffff); | ~~~~~~^~~~~~~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o assemble.o assemble.cc assemble.cc: In function ‘base_call_aux_t* assemble_cns_collect(assemble_pos_t*, const assemble_aux_t*)’: assemble.cc:106:63: warning: suggest parentheses around arithmetic in operand of ‘|’ [-Wparentheses] 106 | if (info>>24 < 4 && (info>>8&0x3f) != 0) info = 4<<24 | info&0xffffff; | ~~~~^~~~~~~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pileup.o pileup.cc aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mapcheck.o mapcheck.cc mapcheck.cc: In function ‘int ma_mapcheck(int, char**)’: mapcheck.cc:60:17: warning: variable ‘fpout’ set but not used [-Wunused-but-set-variable] 60 | FILE *fp_bfa, *fpout; | ^~~~~ aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o get_pos.o get_pos.c aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o assopt.o assopt.c aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o aux_utils.o aux_utils.c aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o rbcc.o rbcc.cc rbcc.cc: In function ‘hash_map_char* cns_load_dbSNP(FILE*)’: rbcc.cc:21:21: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 21 | sprintf(str1, "%s.%d", name, pos); | ^~ In file included from /usr/aarch64-linux-gnu/include/stdio.h:867, from rbcc.cc:7: /usr/aarch64-linux-gnu/include/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 3 and 268 bytes into a destination of size 256 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o subsnp.o subsnp.cc subsnp.cc: In function ‘hash_map_char* ma_load_snp(FILE*)’: subsnp.cc:20:20: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 20 | sprintf(key, "%s.%d", name, pos); | ^~ In file included from /usr/aarch64-linux-gnu/include/stdio.h:867, from subsnp.cc:2: /usr/aarch64-linux-gnu/include/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 3 and 268 bytes into a destination of size 256 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ subsnp.cc: In function ‘hash_set_char* ma_load_snp_set(FILE*)’: subsnp.cc:35:20: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 35 | sprintf(key, "%s.%d", name, pos); | ^~ In file included from /usr/aarch64-linux-gnu/include/stdio.h:867, from subsnp.cc:2: /usr/aarch64-linux-gnu/include/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 3 and 268 bytes into a destination of size 256 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ subsnp.cc: In function ‘void maq_simucns_core(FILE*, gzFile, FILE*)’: subsnp.cc:190:21: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 190 | sprintf(key, "%s.%d", name, pos); | ^~ In file included from /usr/aarch64-linux-gnu/include/stdio.h:867, from subsnp.cc:2: /usr/aarch64-linux-gnu/include/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 3 and 268 bytes into a destination of size 256 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ subsnp.cc:186:22: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 186 | sprintf(key, "%s.%d", name, i); | ^~ In file included from /usr/aarch64-linux-gnu/include/stdio.h:867, from subsnp.cc:2: /usr/aarch64-linux-gnu/include/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 3 and 268 bytes into a destination of size 256 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pair_stat.o pair_stat.cc aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indel_soa.o indel_soa.cc indel_soa.cc: In function ‘void fill_counter(bit32_t*, int, nst_bfa1_t*, gzFile)’: indel_soa.cc:42:40: warning: suggest parentheses around ‘-’ inside ‘<<’ [-Wparentheses] 42 | if (int(m1->seq[k]>>6) == int(s>>(31-j<<1)&3)) ++score; | ~~^~ indel_soa.cc:56:40: warning: suggest parentheses around ‘-’ inside ‘<<’ [-Wparentheses] 56 | if (int(m1->seq[k]>>6) == int(s>>(31-j<<1)&3)) ++score; | ~~^~ aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o maqmap.o maqmap.c aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o maqmap_conv.o maqmap_conv.c aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o altchr.o altchr.cc aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o submap.o submap.c aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o rmdup.o rmdup.cc In file included from /usr/aarch64-linux-gnu/include/string.h:494, from rmdup.cc:2: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* trim_name(char*, char*)’ at rmdup.cc:46:11, inlined from ‘char* trim_name(char*, char*)’ at rmdup.cc:39:21, inlined from ‘void maq_rmdup_core(gzFile, gzFile)’ at rmdup.cc:102:23: /usr/aarch64-linux-gnu/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, long unsigned int, long unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rmdup.cc: In function ‘void maq_rmdup_core(gzFile, gzFile)’: rmdup.cc:42:26: note: length computed here 42 | int c1, c2, tl = strlen(name); | ~~~~~~^~~~~~ In file included from /usr/aarch64-linux-gnu/include/string.h:494, from rmdup.cc:2: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* trim_name(char*, char*)’ at rmdup.cc:46:11, inlined from ‘char* trim_name(char*, char*)’ at rmdup.cc:39:21, inlined from ‘void maq_rmdup_core(gzFile, gzFile)’ at rmdup.cc:94:37: /usr/aarch64-linux-gnu/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, long unsigned int, long unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rmdup.cc: In function ‘void maq_rmdup_core(gzFile, gzFile)’: rmdup.cc:42:26: note: length computed here 42 | int c1, c2, tl = strlen(name); | ~~~~~~^~~~~~ In file included from /usr/aarch64-linux-gnu/include/string.h:494, from rmdup.cc:2: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* trim_name(char*, char*)’ at rmdup.cc:46:11, inlined from ‘char* trim_name(char*, char*)’ at rmdup.cc:39:21, inlined from ‘void maq_rmdup_core(gzFile, gzFile)’ at rmdup.cc:92:31: /usr/aarch64-linux-gnu/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin___strncpy_chk(char*, const char*, long unsigned int, long unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rmdup.cc: In function ‘void maq_rmdup_core(gzFile, gzFile)’: rmdup.cc:42:26: note: length computed here 42 | int c1, c2, tl = strlen(name); | ~~~~~~^~~~~~ aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o simulate.o simulate.c simulate.c: In function ‘maq_simutrain’: simulate.c:83:8: warning: assignment to ‘struct gzFile_s **’ from incompatible pointer type ‘gzFile’ {aka ‘struct gzFile_s *’} [-Wincompatible-pointer-types] 83 | fpout = gzopen(argv[1], "w"); | ^ simulate.c:86:10: warning: passing argument 1 of ‘gzwrite’ from incompatible pointer type [-Wincompatible-pointer-types] 86 | gzwrite(fpout, fqc, sizeof(fqc_t)); | ^~~~~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from simulate.c:6: /usr/include/zlib.h:1446:29: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1446 | ZEXTERN int ZEXPORT gzwrite OF((gzFile file, | ^~ simulate.c:87:10: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [-Wincompatible-pointer-types] 87 | gzclose(fpout); | ^~~~~ | | | struct gzFile_s ** In file included from /usr/include/zlib.h:34, from simulate.c:6: /usr/include/zlib.h:1630:32: note: expected ‘gzFile’ {aka ‘struct gzFile_s *’} but argument is of type ‘struct gzFile_s **’ 1630 | ZEXTERN int ZEXPORT gzclose OF((gzFile file)); | ^~ In file included from /usr/aarch64-linux-gnu/include/string.h:494, from maqmap.h:23, from simulate.c:11: In function ‘memset’, inlined from ‘simustat_core’ at simulate.c:386:2: /usr/aarch64-linux-gnu/include/bits/string_fortified.h:71:10: warning: ‘__builtin___memset_chk’ forming offset [17, 32] is out of the bounds [0, 16] of object ‘tc’ with type ‘int[2][2]’ [-Warray-bounds] 71 | return __builtin___memset_chk (__dest, __ch, __len, __bos0 (__dest)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ simulate.c: In function ‘simustat_core’: simulate.c:381:12: note: ‘tc’ declared here 381 | int i, k, tc[2][2]; | ^~ aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o genran.o genran.c aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indel_pe.o indel_pe.cc aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o stdaln.o stdaln.c stdaln.c: In function ‘aln_local_core’: stdaln.c:534:25: warning: variable ‘b’ set but not used [-Wunused-but-set-variable] 534 | int gap_open, gap_ext, b; | ^ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o indel_call.o indel_call.cc indel_call.cc: In function ‘int maq_indelpe(int, char**)’: indel_call.cc:68:17: warning: ‘last.indel_info_t::indelpos.assemble_indelpos_t::n_ungap’ may be used uninitialized in this function [-Wmaybe-uninitialized] 68 | for (i = 0; i != ii->indelpos.n_ungap; ++i) | ~~^~~~~~~~~~~~~~~~~~~~~~~ indel_call.cc:86:21: note: ‘last.indel_info_t::indelpos.assemble_indelpos_t::n_ungap’ was declared here 86 | indel_info_t curr, last; | ^~~~ indel_call.cc:22:2: warning: ‘last.indel_info_t::indelpos.assemble_indelpos_t::n_types’ may be used uninitialized in this function [-Wmaybe-uninitialized] 22 | if (ii->indelpos.n_types == 0) return; | ^~ indel_call.cc:86:21: note: ‘last.indel_info_t::indelpos.assemble_indelpos_t::n_types’ was declared here 86 | indel_info_t curr, last; | ^~~~ indel_call.cc:60:9: warning: ‘last.indel_info_t::coor’ may be used uninitialized in this function [-Wmaybe-uninitialized] 60 | printf("%s\t%d\t%c\t%d\t%d:%s\t%d\t%d\t%s\t%s\t%d\t@", name, ii->coor+1, ii->type, ii->indelpos.n_reads, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 | int((signed char)(x&0xff)), indel_bases, int(x>>16&0xffff), int(x>>32&0xffff), s0, s1, ii->indelpos.n_ungap); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ indel_call.cc:86:21: note: ‘last.indel_info_t::coor’ was declared here 86 | indel_info_t curr, last; | ^~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o eland2maq.o eland2maq.cc eland2maq.cc: In function ‘void eland2maq_core(FILE*, FILE*, gzFile)’: eland2maq.cc:88:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] 88 | fscanf(fp_eland, "%s", str); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ eland2maq.cc:96:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] 96 | fscanf(fp_eland, "%s", str); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ eland2maq.cc:99:10: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] 99 | fscanf(fp_eland, "%u%u%u%s%u%s", tmp, tmp+1, tmp+2, str, tmp+3, str2); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eland2maq.cc: In function ‘hash_map_char* read_list(FILE*)’: eland2maq.cc:33:9: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] 33 | fscanf(fp, "%s", str); | ~~~~~~^~~~~~~~~~~~~~~ eland2maq.cc: In function ‘void novo2maq_core(FILE*, FILE*, gzFile)’: eland2maq.cc:323:18: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] 323 | fgets( str2, 4096, fp_novo ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ eland2maq.cc: In function ‘void export2maq_core(FILE*, FILE*, gzFile)’: eland2maq.cc:563:21: warning: ‘%d’ directive writing between 1 and 11 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] 563 | sprintf(str2, "%s_%d:%d:%d:%d:%d", str, ti[0], ti[1], ti[2], ti[3], ti[4]); | ^~ In file included from /usr/aarch64-linux-gnu/include/stdio.h:867, from eland2maq.cc:9: /usr/aarch64-linux-gnu/include/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 11 and 1084 bytes into a destination of size 1024 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o csmap2ntmap.o csmap2ntmap.cc aarch64-linux-gnu-gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o break_pair.o break_pair.c In file included from break_pair.c:2: break_pair.c: In function ‘breakpair’: break_pair.c:16:9: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 16 | assert(fp = gzopen(str, "r")); | ^~ aarch64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o glfgen.o glfgen.cc glfgen.cc: In function ‘glf1_t* glfgen1_core(assemble_pos_t*, const assemble_aux_t*, bit8_t)’: glfgen.cc:43:63: warning: suggest parentheses around arithmetic in operand of ‘|’ [-Wparentheses] 43 | if (info>>24 < 4 && (info>>8&0x3f) != 0) info = 4<<24 | info&0xffffff; | ~~~~^~~~~~~~~ aarch64-linux-gnu-g++ -Wall -D_FILE_OFFSET_BITS=64 -D_FASTMAP -DMAQ_LONGREADS -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o maq main.o const.o seq.o bfa.o read.o fasta2bfa.o fastq2bfq.o merge.o match_aux.o match.o sort_mapping.o assemble.o pileup.o mapcheck.o get_pos.o assopt.o aux_utils.o rbcc.o subsnp.o pair_stat.o indel_soa.o maqmap.o maqmap_conv.o altchr.o submap.o rmdup.o simulate.o genran.o indel_pe.o stdaln.o indel_call.o eland2maq.o csmap2ntmap.o break_pair.o glfgen.o -lm -lz make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a make -j1 install DESTDIR=/<>/debian/maq AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>' make[2]: Entering directory '/<>' /bin/mkdir -p '/<>/debian/maq/usr/bin' /usr/bin/install -c maq '/<>/debian/maq/usr/bin' /bin/mkdir -p '/<>/debian/maq/usr/bin' /usr/bin/install -c scripts/maq.pl scripts/farm-run.pl scripts/maq_plot.pl scripts/maq_eval.pl '/<>/debian/maq/usr/bin' make[2]: Nothing to be done for 'install-data-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installexamples -a debian/rules override_dh_installman make[1]: Entering directory '/<>' dh_installman # when installing via debian/manpages the .pl is stripped and the # files will end up in /usr/share/man/pl/man1 cp -a debian/mans/*.1 debian/maq/usr/share/man/man1 make[1]: Leaving directory '/<>' dh_lintian -a dh_perl -a dh_perl: /usr/lib/aarch64-linux-gnu/perl/cross-config-5.30.0/Config.pm does not exist (missing build dependency on perl-xs-dev?) dh_link -a dh_strip_nondeterminism -a debian/rules override_dh_compress make[1]: Entering directory '/<>' dh_compress --exclude=.pdf make[1]: Leaving directory '/<>' dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package maq: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package maq: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'maq' in '../maq_0.7.1-8_arm64.deb'. dpkg-deb: building package 'maq-dbgsym' in '../maq-dbgsym_0.7.1-8_arm64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../maq_0.7.1-8_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2019-10-21T15:21:52Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ maq_0.7.1-8_arm64.changes: -------------------------- Format: 1.8 Date: Mon, 16 Jul 2018 15:42:20 +0200 Source: maq Binary: maq maq-dbgsym Built-For-Profiles: cross nocheck Architecture: arm64 Version: 0.7.1-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: maq - maps short fixed-length polymorphic DNA sequence reads to referen Changes: maq (0.7.1-8) unstable; urgency=medium . [ Steffen Moeller ] * debian/upstream/metadata: - Added references to OMICtools, SciCrunch, bio.tools - yamllint cleanliness . [ Andreas Tille ] * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.1.5 * Lintian should not warn about script-with-language-extension see https://lists.debian.org/debian-med/2018/06/msg00043.html Checksums-Sha1: 02445a254b33f1cb65af947a0aea68dbc1a25705 424268 maq-dbgsym_0.7.1-8_arm64.deb 43d1236072d3cb63cd46117f00f9a03e7b317f15 4606 maq_0.7.1-8_arm64.buildinfo a56f3949edc3d5a8357e5e70dee8ddefd9957a64 301292 maq_0.7.1-8_arm64.deb Checksums-Sha256: dcdff12d01b83615e98045dededde24fb232ce7a60b96565d604fd5fce6dd6fe 424268 maq-dbgsym_0.7.1-8_arm64.deb 503b1cb06efddc0e1b8da428525a724c0482fb367c9b01d9a5a6135b6c589356 4606 maq_0.7.1-8_arm64.buildinfo 7d7dfe163630c9e4d6b3d42f69c3f164e69e2d7e4b962d53218af76199819df5 301292 maq_0.7.1-8_arm64.deb Files: 4db5c081d06d7d96fc65bdca777cae87 424268 debug optional maq-dbgsym_0.7.1-8_arm64.deb e8b25b2622b5b182531674bbffc6fac1 4606 science optional maq_0.7.1-8_arm64.buildinfo b9481594c30ba0be2b7861b28fe8b58f 301292 science optional maq_0.7.1-8_arm64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: maq Binary: maq Architecture: arm64 Version: 0.7.1-8 Checksums-Md5: 4db5c081d06d7d96fc65bdca777cae87 424268 maq-dbgsym_0.7.1-8_arm64.deb b9481594c30ba0be2b7861b28fe8b58f 301292 maq_0.7.1-8_arm64.deb Checksums-Sha1: 02445a254b33f1cb65af947a0aea68dbc1a25705 424268 maq-dbgsym_0.7.1-8_arm64.deb a56f3949edc3d5a8357e5e70dee8ddefd9957a64 301292 maq_0.7.1-8_arm64.deb Checksums-Sha256: dcdff12d01b83615e98045dededde24fb232ce7a60b96565d604fd5fce6dd6fe 424268 maq-dbgsym_0.7.1-8_arm64.deb 7d7dfe163630c9e4d6b3d42f69c3f164e69e2d7e4b962d53218af76199819df5 301292 maq_0.7.1-8_arm64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Mon, 21 Oct 2019 15:21:51 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-11), automake (= 1:1.16.1-4), autopoint (= 0.19.8.1-9), autotools-dev (= 20180224.1), base-files (= 11), base-passwd (= 3.5.46), bash (= 5.0-4), binutils (= 2.33.1-2), binutils-common (= 2.33.1-2), binutils-x86-64-linux-gnu (= 2.33.1-2), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.34-0.1), build-essential (= 12.8), bzip2 (= 1.0.8-2), coreutils (= 8.30-3+b1), cpp (= 4:9.2.1-3.1), cpp-8 (= 8.3.0-23), cpp-9 (= 9.2.1-9), dash (= 0.5.10.2-6), debconf (= 1.5.73), debhelper (= 12.7), debianutils (= 4.9), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.6.1-1), diffutils (= 1:3.7-3), dpkg (= 1.19.7), dpkg-dev (= 1.19.7), dwz (= 0.13-1), fdisk (= 2.34-0.1), file (= 1:5.37-5), findutils (= 4.7.0-1), g++ (= 4:9.2.1-3.1), g++-9 (= 9.2.1-9), gcc (= 4:9.2.1-3.1), gcc-8 (= 8.3.0-23), gcc-8-base (= 8.3.0-23), gcc-9 (= 9.2.1-9), gcc-9-base (= 9.2.1-9), gettext (= 0.19.8.1-9), gettext-base (= 0.19.8.1-9), grep (= 3.3-1), groff-base (= 1.22.4-3), gzip (= 1.9-3+b1), hostname (= 3.22+b1), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-5), libarchive-zip-perl (= 1.67-1), libasan5 (= 9.2.1-9), libatomic1 (= 9.2.1-9), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-2), libaudit1 (= 1:2.8.5-2), libbinutils (= 2.33.1-2), libblkid1 (= 2.34-0.1), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-2), libc-bin (= 2.29-2), libc-dev-bin (= 2.29-2), libc6 (= 2.29-2), libc6-dev (= 2.29-2), libcap-ng0 (= 0.7.9-2+b1), libcc1-0 (= 9.2.1-9), libcroco3 (= 0.6.13-1), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.250), libdebhelper-perl (= 12.7), libdpkg-perl (= 1.19.7), libelf1 (= 0.176-1.1), libfdisk1 (= 2.34-0.1), libffi6 (= 3.2.1-9), libfile-stripnondeterminism-perl (= 1.6.1-1), libgcc-8-dev (= 8.3.0-23), libgcc-9-dev (= 9.2.1-9), libgcc1 (= 1:9.2.1-9), libgcrypt20 (= 1.8.5-3), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libglib2.0-0 (= 2.62.1-1), libgmp10 (= 2:6.1.2+dfsg-4), libgomp1 (= 9.2.1-9), libgpg-error0 (= 1.36-7), libicu63 (= 63.2-2), libisl21 (= 0.21-2), libitm1 (= 9.2.1-9), liblsan0 (= 9.2.1-9), liblz4-1 (= 1.9.1-2), liblzma5 (= 5.2.4-1+b1), libmagic-mgc (= 1:5.37-5), libmagic1 (= 1:5.37-5), libmount1 (= 2.34-0.1), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), libmpx2 (= 8.3.0-23), libncurses6 (= 6.1+20190803-1), libncursesw6 (= 6.1+20190803-1), libpam-modules (= 1.3.1-5), libpam-modules-bin (= 1.3.1-5), libpam-runtime (= 1.3.1-5), libpam0g (= 1.3.1-5), libpcre2-8-0 (= 10.32-5+b1), libpcre3 (= 2:8.39-12+b1), libperl5.30 (= 5.30.0-8), libpipeline1 (= 1.5.1-2), libquadmath0 (= 9.2.1-9), libseccomp2 (= 2.4.1-2), libselinux1 (= 2.9-2+b2), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.34-0.1), libstdc++-9-dev (= 9.2.1-9), libstdc++6 (= 9.2.1-9), libsub-override-perl (= 0.09-2), libsystemd0 (= 242-7), libtinfo6 (= 6.1+20190803-1), libtool (= 2.4.6-11), libtsan0 (= 9.2.1-9), libubsan1 (= 9.2.1-9), libuchardet0 (= 0.0.6-3), libudev1 (= 242-7), libunistring2 (= 0.9.10-2), libuuid1 (= 2.34-0.1), libxml2 (= 2.9.4+dfsg1-7+b3), linux-libc-dev (= 5.3.7-1), login (= 1:4.7-2), lsb-base (= 11.1.0), m4 (= 1.4.18-2), make (= 4.2.1-1.2), man-db (= 2.8.7-3), mawk (= 1.3.3-17+b3), ncurses-base (= 6.1+20190803-1), ncurses-bin (= 6.1+20190803-1), patch (= 2.7.6-6), perl (= 5.30.0-8), perl-base (= 5.30.0-8), perl-modules-5.30 (= 5.30.0-8), po-debconf (= 1.0.21), sed (= 4.7-1), sensible-utils (= 0.0.12), sysvinit-utils (= 2.96-1), tar (= 1.30+dfsg-6+b1), util-linux (= 2.34-0.1), xz-utils (= 5.2.4-1+b1), zlib1g (= 1:1.2.11.dfsg-1+b1), zlib1g-dev (= 1:1.2.11.dfsg-1+b1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1531748540" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ maq-dbgsym_0.7.1-8_arm64.deb ---------------------------- new Debian package, version 2.0. size 424268 bytes: control archive=528 bytes. 354 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: maq-dbgsym Source: maq Version: 0.7.1-8 Auto-Built-Package: debug-symbols Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 444 Depends: maq (= 0.7.1-8) Section: debug Priority: optional Description: debug symbols for maq Build-Ids: 057678747afef53fecc0b067a1d9303199caa821 drwxr-xr-x root/root 0 2018-07-16 13:42 ./ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/lib/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/lib/debug/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/lib/debug/.build-id/05/ -rw-r--r-- root/root 444056 2018-07-16 13:42 ./usr/lib/debug/.build-id/05/7678747afef53fecc0b067a1d9303199caa821.debug drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-07-16 13:42 ./usr/share/doc/maq-dbgsym -> maq maq_0.7.1-8_arm64.deb --------------------- new Debian package, version 2.0. size 301292 bytes: control archive=1544 bytes. 828 bytes, 18 lines control 1600 bytes, 26 lines md5sums Package: maq Version: 0.7.1-8 Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 525 Depends: libc6 (>= 2.29), libgcc1 (>= 1:4.2), libstdc++6 (>= 5), zlib1g (>= 1:1.2.3.3) Suggests: bwa, samtools Section: science Priority: optional Homepage: http://maq.sourceforge.net/ Description: maps short fixed-length polymorphic DNA sequence reads to reference sequences Maq (short for Mapping and Assembly with Quality) builds mapping assemblies from short reads generated by the next-generation sequencing machines. It was particularly designed for Illumina-Solexa 1G Genetic Analyzer, and has a preliminary functionality to handle ABI SOLiD data. Maq is previously known as mapass2. . Developmemt of Maq stopped in 2008. Its successors are BWA and SAMtools. drwxr-xr-x root/root 0 2018-07-16 13:42 ./ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/bin/ -rwxr-xr-x root/root 4007 2018-07-16 13:42 ./usr/bin/farm-run.pl -rwxr-xr-x root/root 222736 2018-07-16 13:42 ./usr/bin/maq -rwxr-xr-x root/root 28813 2018-07-16 13:42 ./usr/bin/maq.pl -rwxr-xr-x root/root 10995 2018-07-16 13:42 ./usr/bin/maq_eval.pl -rwxr-xr-x root/root 4892 2018-07-16 13:42 ./usr/bin/maq_plot.pl drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/doc-base/ -rw-r--r-- root/root 295 2018-07-16 13:42 ./usr/share/doc-base/maq drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/doc/maq/ -rw-r--r-- root/root 47 2008-03-15 12:06 ./usr/share/doc/maq/AUTHORS -rw-r--r-- root/root 939 2008-03-15 12:06 ./usr/share/doc/maq/README -rw-r--r-- root/root 2000 2018-07-16 13:42 ./usr/share/doc/maq/changelog.Debian.gz -rw-r--r-- root/root 22703 2008-09-22 08:54 ./usr/share/doc/maq/changelog.gz -rw-r--r-- root/root 2147 2018-07-16 13:42 ./usr/share/doc/maq/copyright drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/doc/maq/examples/ -rw-r--r-- root/root 761 2018-07-16 13:42 ./usr/share/doc/maq/examples/test.fa -rw-r--r-- root/root 4319 2018-07-16 13:42 ./usr/share/doc/maq/examples/test.fastq.gz -rw-r--r-- root/root 148751 2008-09-26 14:47 ./usr/share/doc/maq/maq.pdf drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/lintian/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 244 2018-07-16 13:42 ./usr/share/lintian/overrides/maq drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/man/ drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/man/man1/ -rw-r--r-- root/root 439 2018-07-16 13:42 ./usr/share/man/man1/farm-run.pl.1.gz -rw-r--r-- root/root 12557 2018-07-16 13:42 ./usr/share/man/man1/maq.1.gz -rw-r--r-- root/root 573 2018-07-16 13:42 ./usr/share/man/man1/maq.pl.1.gz -rw-r--r-- root/root 361 2018-07-16 13:42 ./usr/share/man/man1/maq_eval.pl.1.gz -rw-r--r-- root/root 304 2018-07-16 13:42 ./usr/share/man/man1/maq_plot.pl.1.gz drwxr-xr-x root/root 0 2018-07-16 13:42 ./usr/share/maq/ -rwxr-xr-x root/root 3590 2008-09-22 08:54 ./usr/share/maq/asub -rwxr-xr-x root/root 9729 2008-09-22 08:54 ./usr/share/maq/fq_all2std.pl -rwxr-xr-x root/root 4568 2008-06-23 14:15 ./usr/share/maq/maq_post.pl -rwxr-xr-x root/root 6326 2008-07-27 18:14 ./usr/share/maq/maq_sanger.pl -rwxr-xr-x root/root 13683 2008-07-27 18:14 ./usr/share/maq/paf_utils.pl -rwxr-xr-x root/root 3066 2008-03-28 23:36 ./usr/share/maq/solid2fastq.pl lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [540 B] Get:5 copy:/<>/apt_archive ./ Packages [625 B] Fetched 2128 B in 0s (140 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-op-check-perl libcapture-tiny-perl libcgi-pm-perl libclass-accessor-perl libclass-method-modifiers-perl libclone-perl libdevel-callchecker-perl libdevel-globaldestruction-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl libmailtools-perl libmodule-runtime-perl libmoo-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsqlite3-0 libssl1.1 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl liburi-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common t1utils Suggested packages: libdata-dump-perl ca-certificates libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libdevel-stacktrace-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc Recommended packages: gnupg libcgi-fast-perl libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libclass-xsaccessor-perl libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libauthen-sasl-perl libunicode-utf8-perl libref-util-perl libtype-tiny-xs-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-op-check-perl libcapture-tiny-perl libcgi-pm-perl libclass-accessor-perl libclass-method-modifiers-perl libclone-perl libdevel-callchecker-perl libdevel-globaldestruction-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl libmailtools-perl libmodule-runtime-perl libmoo-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsqlite3-0 libssl1.1 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl liburi-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:arm64 t1utils 0 upgraded, 67 newly installed, 0 to remove and 0 not upgraded. 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[26.5 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libnumber-compare-perl all 0.03-1 [7642 B] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-glob-perl all 0.10-1 [8362 B] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.41-1 [79.0 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b2 [25.6 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.09-1 [11.1 kB] Get:48 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amd64 t1utils amd64 1.41-3 [62.3 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.29.0 [1279 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 8555 kB in 0s (26.8 MB/s) Selecting previously unselected package readline-common. 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Setting up libb-hooks-op-check-perl (0.22-1+b2) ... Setting up libipc-run-perl (20180523.0-1) ... Setting up libsub-exporter-progressive-perl (0.001013-1) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libsub-name-perl (0.26-1) ... Setting up libpath-tiny-perl (0.108-1) ... Setting up librole-tiny-perl (2.001003-1) ... Setting up libdevel-globaldestruction-perl (0.14-1) ... Setting up netbase (5.6) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libexporter-tiny-perl (1.002001-1) ... Setting up libclass-accessor-perl (0.51-1) ... Setting up libnet-ip-perl (1.26-2) ... Setting up readline-common (8.0-3) ... Setting up liburi-perl (1.76-1) ... Setting up libnet-ssleay-perl (1.88-1+b1) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.416-1+b5) ... Setting up libreadline8:amd64 (8.0-3) ... Setting up libtype-tiny-perl (1.004004-1) ... 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I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 8576 Build-Time: 33 Distribution: unstable Foreign Architectures: arm64 Host Architecture: arm64 Install-Time: 17 Job: maq_0.7.1-8 Lintian: pass Machine Architecture: amd64 Package: maq Package-Time: 63 Source-Version: 0.7.1-8 Space: 8576 Status: successful Version: 0.7.1-8 -------------------------------------------------------------------------------- Finished at 2019-10-21T15:21:52Z Build needed 00:01:03, 8576k disk space