sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | codonw 1.4.4-5 (mipsel) Sun, 17 May 2020 12:01:23 +0000 | +==============================================================================+ Package: codonw Version: 1.4.4-5 Source Version: 1.4.4-5 Distribution: unstable Machine Architecture: amd64 Host Architecture: mipsel Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-908c9a45-09f4-42ec-835e-82eff11e815c' with '<>' I: NOTICE: Log filtering will replace 'build/codonw-2gceRO/resolver-iAfImp' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [146 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-17-0805.01.pdiff [11.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-17-0805.01.pdiff [11.8 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-17-0805.01.pdiff [20.7 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-17-0805.01.pdiff [20.7 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main mipsel Packages [7923 kB] Fetched 8158 kB in 2s (5169 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'codonw' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/codonw.git Please use: git clone https://salsa.debian.org/med-team/codonw.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 169 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main codonw 1.4.4-5 (dsc) [1578 B] Get:2 http://debian.oregonstate.edu/debian unstable/main codonw 1.4.4-5 (tar) [156 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main codonw 1.4.4-5 (diff) [11.1 kB] Fetched 169 kB in 0s (14.0 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/codonw-2gceRO/codonw-1.4.4' with '<>' I: NOTICE: Log filtering will replace 'build/codonw-2gceRO' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), help2man, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-mipsel:amd64, libc-dev:mipsel, libstdc++-dev:mipsel Filtered Build-Depends: debhelper-compat (= 13), help2man, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-mipsel:amd64, libc-dev:mipsel, libstdc++-dev:mipsel 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 [410 B] Get:5 copy:/<>/apt_archive ./ Packages [500 B] Fetched 1867 B in 0s (73.1 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-mipsel-linux-gnu bsdmainutils build-essential cpp-9-mipsel-linux-gnu cpp-mipsel-linux-gnu cross-config crossbuild-essential-mipsel debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++ g++-9 g++-9-mipsel-linux-gnu g++-mipsel-linux-gnu gcc-10-base:mipsel gcc-10-cross-base-mipsen gcc-9-base:mipsel gcc-9-cross-base-mipsen gcc-9-mipsel-linux-gnu gcc-9-mipsel-linux-gnu-base gcc-mipsel-linux-gnu gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libatomic1:mipsel libatomic1-mipsel-cross libbsd0 libc6:mipsel libc6-dev libc6-dev:mipsel libc6-dev-mipsel-cross libc6-mipsel-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:mipsel libcrypt1:mipsel libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:mipsel libgcc-9-dev-mipsel-cross libgcc-s1:mipsel libgcc-s1-mipsel-cross libglib2.0-0 libgomp1:mipsel libgomp1-mipsel-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libstdc++-9-dev libstdc++-9-dev:mipsel libstdc++-9-dev-mipsel-cross libstdc++6:mipsel libstdc++6-mipsel-cross libsub-override-perl libtool libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:mipsel linux-libc-dev-mipsel-cross m4 man-db po-debconf sensible-utils ucf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc wamerican | wordlist whois vacation gcc-9-locales cpp-doc dh-make binutils-multiarch g++-multilib g++-9-multilib gcc-9-doc g++-9-multilib-mipsel-linux-gnu gcc-9-multilib-mipsel-linux-gnu manpages-dev flex bison gdb-mipsel-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:mipsel libc-l10n:mipsel locales:mipsel glibc-doc manpages-dev:mipsel libstdc++-9-doc libstdc++-9-doc:mipsel 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:mipsel libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs 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-mipsel-linux-gnu bsdmainutils build-essential cpp-9-mipsel-linux-gnu cpp-mipsel-linux-gnu cross-config crossbuild-essential-mipsel debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++ g++-9 g++-9-mipsel-linux-gnu g++-mipsel-linux-gnu gcc-10-base:mipsel gcc-10-cross-base-mipsen gcc-9-base:mipsel gcc-9-cross-base-mipsen gcc-9-mipsel-linux-gnu gcc-9-mipsel-linux-gnu-base gcc-mipsel-linux-gnu gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libatomic1:mipsel libatomic1-mipsel-cross libbsd0 libc6:mipsel libc6-dev libc6-dev:mipsel libc6-dev-mipsel-cross libc6-mipsel-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:mipsel libcrypt1:mipsel libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:mipsel libgcc-9-dev-mipsel-cross libgcc-s1:mipsel libgcc-s1-mipsel-cross libglib2.0-0 libgomp1:mipsel libgomp1-mipsel-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libstdc++-9-dev libstdc++-9-dev:mipsel libstdc++-9-dev-mipsel-cross libstdc++6:mipsel libstdc++6-mipsel-cross libsub-override-perl libtool libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:mipsel linux-libc-dev-mipsel-cross m4 man-db po-debconf sbuild-build-depends-main-dummy:mipsel sensible-utils ucf 0 upgraded, 91 newly installed, 0 to remove and 0 not upgraded. Need to get 74.9 MB of archives. After this operation, 301 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [924 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 1.22.4-5 [920 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.1-1 [1308 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4 [18.8 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main mipsel gcc-10-base mipsel 10.1.0-1 [196 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main mipsel gcc-9-base mipsel 9.3.0-12 [197 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-5 [262 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-5 [120 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-5 [67.9 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0039 [68.8 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.2-1 [775 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-mipsel-linux-gnu amd64 2.34-5cross6 [2309 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.16-1 [104 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.30-8 [2631 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.3.0-12 [1701 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.3.0-12 [10.7 MB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-mipsel-linux-gnu-base amd64 9.3.0-8cross1 [196 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-mipsel-linux-gnu amd64 9.3.0-8cross1 [6465 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-mipsel-linux-gnu amd64 4:9.2.1-4.1 [16.7 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base-mipsen all 9.3.0-8cross1 [192 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base-mipsen all 10-20200324-1cross1 [192 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-mipsel-cross all 2.30-2cross1 [1199 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-mipsel-cross all 10-20200324-1cross1 [46.6 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-mipsel-cross all 10-20200324-1cross1 [90.3 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-mipsel-cross all 10-20200324-1cross1 [6652 B] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-mipsel-cross all 9.3.0-8cross1 [223 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-mipsel-linux-gnu amd64 9.3.0-8cross1 [6819 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-mipsel-linux-gnu amd64 4:9.2.1-4.1 [1460 B] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-mipsel-cross all 10-20200324-1cross1 [395 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-mipsel-cross all 5.4.19-1cross1 [1166 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-mipsel-cross all 2.30-2cross1 [2274 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-mipsel-cross all 9.3.0-8cross1 [1708 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-mipsel-linux-gnu amd64 9.3.0-8cross1 [7051 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 g++-mipsel-linux-gnu amd64 4:9.2.1-4.1 [1176 B] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.2-3 [8296 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-5 [709 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-mipsel all 12.8 [6684 B] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13 [184 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.8.0-1 [24.2 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.8.0-1 [14.8 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.64.2-1 [1343 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13 [1002 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 help2man amd64 1.47.15 [181 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main mipsel libgcc-s1 mipsel 10.1.0-1 [46.1 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main mipsel libcrypt1 mipsel 1:4.4.16-1 [113 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main mipsel libc6 mipsel 2.30-8 [2422 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main mipsel libatomic1 mipsel 10.1.0-1 [6712 B] Get:85 http://debian.oregonstate.edu/debian unstable/main mipsel linux-libc-dev mipsel 5.6.7-1 [1092 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main mipsel libcrypt-dev mipsel 1:4.4.16-1 [134 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main mipsel libc6-dev mipsel 2.30-8 [2271 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main mipsel libgomp1 mipsel 10.1.0-1 [92.3 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main mipsel libgcc-9-dev mipsel 9.3.0-12 [222 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main mipsel libstdc++6 mipsel 10.1.0-1 [435 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main mipsel libstdc++-9-dev mipsel 9.3.0-12 [1717 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 74.9 MB in 1s (115 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 12640 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_1.22.4-5_amd64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.9.1-1_amd64.deb ... Unpacking man-db (2.9.1-1) ... 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Unpacking sbuild-build-depends-main-dummy:mipsel (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up libpipeline1:amd64 (1.5.2-2) ... Setting up libfile-which-perl (1.23-1) ... Setting up libmagic-mgc (1:5.38-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.64.2-1) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13) ... Setting up libmagic1:amd64 (1:5.38-5) ... Setting up linux-libc-dev:mipsel (5.6.7-1) ... Setting up libc6-mipsel-cross (2.30-2cross1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.38-5) ... Setting up gcc-9-cross-base-mipsen (9.3.0-8cross1) ... Setting up gcc-9-mipsel-linux-gnu-base:amd64 (9.3.0-8cross1) ... Setting up libyaml-perl (1.30-1) ... Setting up libicu63:amd64 (63.2-3) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up gcc-10-base:mipsel (10.1.0-1) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3) ... Setting up gcc-10-cross-base-mipsen (10-20200324-1cross1) ... Setting up binutils-mipsel-linux-gnu (2.34-5cross6) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libgomp1-mipsel-cross (10-20200324-1cross1) ... Setting up autopoint (0.19.8.1-10) ... Setting up cpp-9-mipsel-linux-gnu (9.3.0-8cross1) ... Setting up linux-libc-dev-mipsel-cross (5.4.19-1cross1) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up libcrypt-dev:amd64 (1:4.4.16-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libc6-dev:amd64 (2.30-8) ... 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 (2.9.10+dfsg-5) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up gcc-9-base:mipsel (9.3.0-12) ... Setting up libfile-stripnondeterminism-perl (1.8.0-1) ... Setting up libstdc++-9-dev:amd64 (9.3.0-12) ... Setting up libc6-dev-mipsel-cross (2.30-2cross1) ... Setting up libtool (2.4.6-14) ... Setting up libgcc-s1-mipsel-cross (10-20200324-1cross1) ... Setting up m4 (1.4.18-4) ... Setting up libatomic1-mipsel-cross (10-20200324-1cross1) ... Setting up help2man (1.47.15) ... Setting up libgcc-9-dev-mipsel-cross (9.3.0-8cross1) ... Setting up cpp-mipsel-linux-gnu (4:9.2.1-4.1) ... 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 ucf (3.0039) ... Setting up g++-9 (9.3.0-12) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.8.0-1) ... Setting up g++ (4:9.2.1-3.1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-5) ... Setting up build-essential (12.8) ... Setting up automake (1:1.16.2-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gcc-9-mipsel-linux-gnu (9.3.0-8cross1) ... Setting up gettext (0.19.8.1-10) ... Setting up libstdc++6-mipsel-cross (10-20200324-1cross1) ... Setting up man-db (2.9.1-1) ... 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-mipsel-linux-gnu (4:9.2.1-4.1) ... Setting up libxml-libxml-perl (2.0134+dfsg-2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libstdc++-9-dev-mipsel-cross (9.3.0-8cross1) ... Setting up po-debconf (1.0.21) ... Setting up g++-9-mipsel-linux-gnu (9.3.0-8cross1) ... Setting up g++-mipsel-linux-gnu (4:9.2.1-4.1) ... Setting up libxml-simple-perl (2.25-1) ... 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-mipsel (12.8) ... Setting up libcrypt1:mipsel (1:4.4.16-1) ... Setting up libgcc-s1:mipsel (10.1.0-1) ... Setting up libc6:mipsel (2.30-8) ... Setting up libcrypt-dev:mipsel (1:4.4.16-1) ... Setting up libc6-dev:mipsel (2.30-8) ... Setting up libstdc++6:mipsel (10.1.0-1) ... Setting up libgomp1:mipsel (10.1.0-1) ... Setting up dh-autoreconf (19) ... Setting up libatomic1:mipsel (10.1.0-1) ... Setting up debhelper (13) ... Setting up libgcc-9-dev:mipsel (9.3.0-12) ... Setting up libstdc++-9-dev:mipsel (9.3.0-12) ... Setting up sbuild-build-depends-main-dummy:mipsel (0.invalid.0) ... Processing triggers for libc-bin (2.30-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (mipsel included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-6-amd64 #1 SMP Debian 4.19.67-2+deb10u2 (2019-11-11) amd64 (x86_64) Toolchain package versions: binutils_2.34-8 dpkg-dev_1.19.7 g++-9_9.3.0-12 gcc-9_9.3.0-12 libc6-dev_2.30-8 libstdc++-9-dev_9.3.0-12 libstdc++-9-dev-mipsel-cross_9.3.0-8cross1 libstdc++6_10.1.0-1 libstdc++6-mipsel-cross_10-20200324-1cross1 linux-libc-dev_5.6.7-1 Package versions: adduser_3.118 apt_2.1.2 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-8 binutils-common_2.34-8 binutils-mipsel-linux-gnu_2.34-5cross6 binutils-x86-64-linux-gnu_2.34-8 bsdmainutils_11.1.2+b1 bsdutils_1:2.35.1-5 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-8_8.4.0-3 cpp-9_9.3.0-12 cpp-9-mipsel-linux-gnu_9.3.0-8cross1 cpp-mipsel-linux-gnu_4:9.2.1-4.1 cross-config_2.6.15-3 crossbuild-essential-mipsel_12.8 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13 debian-archive-keyring_2019.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.0-1 diffutils_1:3.7-3 dpkg_1.19.7 dpkg-cross_2.6.15-3 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.1-5 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.3.0-12 g++-9-mipsel-linux-gnu_9.3.0-8cross1 g++-mipsel-linux-gnu_4:9.2.1-4.1 gcc_4:9.2.1-3.1 gcc-10-base_10.1.0-1 gcc-10-cross-base-mipsen_10-20200324-1cross1 gcc-8-base_8.4.0-3 gcc-9_9.3.0-12 gcc-9-base_9.3.0-12 gcc-9-cross-base-mipsen_9.3.0-8cross1 gcc-9-mipsel-linux-gnu_9.3.0-8cross1 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libdebhelper-perl_13 libdebian-dpkgcross-perl_2.6.15-3 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.1-5 libffi6_3.2.1-9 libffi7_3.3-4 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.8.0-1 libfile-which-perl_1.23-1 libgcc-9-dev_9.3.0-12 libgcc-9-dev-mipsel-cross_9.3.0-8cross1 libgcc-s1_10.1.0-1 libgcc-s1-mipsel-cross_10-20200324-1cross1 libgcc1_1:10.1.0-1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.2-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10.1.0-1 libgomp1-mipsel-cross_10-20200324-1cross1 libgpg-error0_1.37-1 libhogweed4_3.5.1+really3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-3 libidn2-0_2.3.0-1 libio-string-perl_1.08-3 libisl19_0.20-2 libisl22_0.22.1-1 libitm1_10.1.0-1 liblocale-gettext-perl_1.07-4 liblsan0_10.1.0-1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1+b1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.35.1-5 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.4.0-3 libncursesw6_6.2-1 libnettle6_3.5.1+really3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libp11-kit0_0.23.20-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12+b1 libperl5.28_5.28.1-6 libperl5.30_5.30.0-10 libpipeline1_1.5.2-2 libquadmath0_10.1.0-1 libseccomp2_2.4.3-1+b1 libselinux1_3.0-1+b3 libsemanage-common_3.0-1 libsemanage1_3.0-1+b3 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.1-5 libss2_1.45.6-1 libstdc++-9-dev_9.3.0-12 libstdc++-9-dev-mipsel-cross_9.3.0-8cross1 libstdc++6_10.1.0-1 libstdc++6-mipsel-cross_10-20200324-1cross1 libsub-override-perl_0.09-2 libsystemd0_245.5-2 libtasn1-6_4.16.0-2 libtinfo6_6.2-1 libtool_2.4.6-14 libtsan0_10.1.0-1 libubsan1_10.1.0-1 libuchardet0_0.0.6-3 libudev1_245.5-2 libunistring2_0.9.10-2 libuuid1_2.35.1-5 libxml-libxml-perl_2.0134+dfsg-2 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.02+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.10+dfsg-5 libyaml-perl_1.30-1 libzstd1_1.4.4+dfsg-3 linux-libc-dev_5.6.7-1 linux-libc-dev-mipsel-cross_5.4.19-1cross1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0 m4_1.4.18-4 make_4.2.1-2+b1 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.35.1-5 ncurses-base_6.2-1 ncurses-bin_6.2-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.0-10 perl-base_5.30.0-10 perl-modules-5.28_5.28.1-6 perl-modules-5.30_5.30.0-10 po-debconf_1.0.21 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 ucf_3.0039 util-linux_2.35.1-5 xz-utils_5.2.4-1+b1 zlib1g_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: codonw Binary: codonw Architecture: any Version: 1.4.4-5 Maintainer: Debian Med Packaging Team Uploaders: Sascha Steinbiss Homepage: http://codonw.sourceforge.net Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/codonw Vcs-Git: https://salsa.debian.org/med-team/codonw.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), help2man Package-List: codonw deb science optional arch=any Checksums-Sha1: 5f5c5deb84b291692c9b00657357d4a2881badae 155815 codonw_1.4.4.orig.tar.gz 7b850de0d3a5a5baf1c6e48f00a5fba21773e98d 11148 codonw_1.4.4-5.debian.tar.xz Checksums-Sha256: 942d52c16e85d6f5f2543482a97a094d245180c0e6ba0845941f18d7cbe15aa1 155815 codonw_1.4.4.orig.tar.gz b919fb47eee1b9a77e447e120dd368d55e9a40d9a60ec9960daf5b56becf51a7 11148 codonw_1.4.4-5.debian.tar.xz Files: e8178e830b52e44b43f2c709cf838abb 155815 codonw_1.4.4.orig.tar.gz dbb9102f8e0c647446b69daf83125adf 11148 codonw_1.4.4-5.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEEhFH5F4Fy5+Lcc/eVUfhKj+zKfgkFAl6/eToACgkQUfhKj+zK fglP4wf+LhCQQozIp1H+jQbd5F96ppmYhovcpPuZQ/8kb/0i2YKTa8tGrZA3KEwq /I07O9m2kp0Lfna4emWI5v52JM+UFeP6jit1FYAyGsdgdBqEpNoYqTKoHNzDmGeq p2+oKJEishvUQ9PfjFTSHWGXulc+pUa0l/NX8nPkrRef7pwkMtiA6TFBbW/oZEtc XnFTwj3U3oGtow+N91X0G/B8EpVfhEsPifLKtZTYckYJnmuNIiOFc7ZkHgRL06Tt pKyW+8rzgmkIUG+0mvV47h+wiE0s/PSJLLvRdEr4s3jqhI5Vxc6jzPBP4fMqJ1cz zgXGBNGWN2/Ziao/UVjtmpFeqp2BNw== =8rMx -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat May 16 05:25:14 2020 UTC gpgv: using RSA key 8451F9178172E7E2DC73F79551F84A8FECCA7E09 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./codonw_1.4.4-5.dsc dpkg-source: info: extracting codonw in /<> dpkg-source: info: unpacking codonw_1.4.4.orig.tar.gz dpkg-source: info: unpacking codonw_1.4.4-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening dpkg-source: info: applying enable_clean dpkg-source: info: applying remove_pause dpkg-source: info: applying define_linux dpkg-source: info: applying spelling dpkg-source: info: applying helpfile_location dpkg-source: info: applying fix_link_name_clashes dpkg-source: info: applying remove_nondeterminism Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.mipsel 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-908c9a45-09f4-42ec-835e-82eff11e815c SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -amipsel -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package codonw dpkg-buildpackage: info: source version 1.4.4-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-architecture: warning: specified GNU system type mipsel-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 mipsel debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' rm -rf *.o *.coa *.blk *.out *raw codonw codonW.log make[1]: Leaving directory '/<>' debian/rules override_dh_clean make[1]: Entering directory '/<>' rm -rf debian/man dh_clean --exclude=Makefile.orig make[1]: Leaving directory '/<>' 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 '/<>' /usr/bin/make codonw make[2]: Entering directory '/<>' cc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wdate-time -D_FORTIFY_SOURCE=2 codon_us.c In file included from codon_us.c:77: codon_us.c: In function ‘codon_error’: codonW.h:38:74: warning: implicit declaration of function ‘gets’; did you mean ‘fgets’? [-Wimplicit-function-declaration] 38 | #define pause {fprintf(stderr,"\nPress return or enter to continue -> ");gets(pm->junk);} | ^~~~ codon_us.c:347:6: note: in expansion of macro ‘pause’ 347 | pause; | ^~~~~ codon_us.c: In function ‘codon_usage_out’: codon_us.c:373:24: warning: format ‘%i’ expects argument of type ‘int’, but argument 3 has type ‘long int’ [-Wformat=] 373 | fprintf(fblkout, "%i%c",nncod[x],sp); | ~^ ~~~~~~~~ | | | | int long int | %li codon_us.c: In function ‘raau_usage_out’: codon_us.c:479:21: warning: too many arguments for format [-Wformat-extra-args] 479 | fprintf(fblkout, "\n",sp); | ^~~~ codon_us.c: In function ‘cbi_out’: codon_us.c:831:32: warning: format ‘%f’ expects argument of type ‘double’, but argument 3 has type ‘int’ [-Wformat=] 831 | sprintf(pm->messages, " Serious error in CBI information found" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 836 | pcbi->fop_cod[x], x); | ~~~~~~~~~~~~~~~~ | | | int codon_us.c:832:38: note: format string is defined here 832 | " an illegal CBI value of %f for codon %i" | ~^ | | | double | %d codon_us.c: In function ‘fop_out’: codon_us.c:988:28: warning: format ‘%f’ expects argument of type ‘double’, but argument 3 has type ‘int’ [-Wformat=] 988 | sprintf(pm->messages, " Serious error in fop information found" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 993 | pfop->fop_cod[x], x); | ~~~~~~~~~~~~~~~~ | | | int codon_us.c:989:37: note: format string is defined here 989 | " an illegal fop value of %f for codon %l" | ~^ | | | double | %d codon_us.c:988:28: warning: unknown conversion type character ‘ ’ in format [-Wformat=] 988 | sprintf(pm->messages, " Serious error in fop information found" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c:990:11: note: format string is defined here 990 | " permissible values are \n 1 for non-optimal" | ^ codon_us.c:988:28: warning: too many arguments for format [-Wformat-extra-args] 988 | sprintf(pm->messages, " Serious error in fop information found" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c:994:18: warning: unknown conversion type character ‘,’ in format [-Wformat=] 994 | printf ("opt %l, std %l, nonopt %l\n",opt,std,nonopt); | ^ codon_us.c:994:26: warning: unknown conversion type character ‘,’ in format [-Wformat=] 994 | printf ("opt %l, std %l, nonopt %l\n",opt,std,nonopt); | ^ codon_us.c:994:37: warning: unknown conversion type character ‘\x0a’ in format [-Wformat=] 994 | printf ("opt %l, std %l, nonopt %l\n",opt,std,nonopt); | ^~ codon_us.c:994:11: warning: too many arguments for format [-Wformat-extra-args] 994 | printf ("opt %l, std %l, nonopt %l\n",opt,std,nonopt); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c: In function ‘gc_out’: codon_us.c:1181:10: warning: too many arguments for format [-Wformat-extra-args] 1181 | "Gene_description%cLen_aa%cLen_sym%cGC%cGC3s%cGCn3s%cGC1%cGC2" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c: In function ‘dinuc_out’: codon_us.c:1476:32: warning: precision used with ‘%c’ gnu_printf format [-Wformat=] 1476 | fprintf(fblkout,"%c%c%4.4c",bases[x],bases[i],sp); | ^ codon_us.c: In function ‘hydro_out’: codon_us.c:2115:27: warning: too many arguments for format [-Wformat-extra-args] 2115 | fprintf(pm->my_err, "No output was written to file \n", title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c: In function ‘aromo_out’: codon_us.c:2148:27: warning: too many arguments for format [-Wformat-extra-args] 2148 | fprintf(pm->my_err, "No output was written to file \n", title); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c: In function ‘gen_cusort_fop’: codon_us.c:1699:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result] 1699 | fgets(pm->junk, BUFSIZ,fnam);/* by scanning for lines of CU in */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c:1700:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 1700 | fscanf(fnam, "%s", pm->junk); /* now we know the name of seq i */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ codon_us.c:1703:8: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 1703 | fscanf(fnam, "%f", &v2); /* assign it initially to v2 */ | ^~~~~~~~~~~~~~~~~~~~~~~ codon_us.c:1711:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 1711 | fscanf(fnam, "%f\n", &v2); /* now read the last codon in */ | ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wdate-time -D_FORTIFY_SOURCE=2 codons.c codons.c: In function ‘main’: codons.c:190:55: warning: format ‘%i’ expects argument of type ‘int’, but argument 3 has type ‘long int’ [-Wformat=] 190 | fprintf(pm->my_err,"\n\n\t\tNumber of sequences: %i\n", | ~^ | | | int | %li 191 | num_sequence); | ~~~~~~~~~~~~ | | | long int codons.c:196:25: warning: format ‘%i’ expects argument of type ‘int’, but argument 3 has type ‘long int’ [-Wformat=] 196 | fprintf(pm->my_err, "\tWARNING\t At least one sequence in your" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 | " input file has\ninternal stop codons (found %i" 198 | " internal stops) \tWARNING\n",num_seq_int_stop); | ~~~~~~~~~~~~~~~~ | | | long int codons.c:197:68: note: format string is defined here 197 | " input file has\ninternal stop codons (found %i" | ~^ | | | int | %li codons.c:200:39: warning: format ‘%i’ expects argument of type ‘int’, but argument 3 has type ‘long int’ [-Wformat=] 200 | fprintf(pm->my_err, "\tWARNING\t %i sequences had internal " | ~^ | | | int | %li 201 | "stop codons \tWARNING\n",num_seq_int_stop); | ~~~~~~~~~~~~~~~~ | | | long int In file included from codons.c:90: codonW.h:38:74: warning: implicit declaration of function ‘gets’; did you mean ‘fgets’? [-Wimplicit-function-declaration] 38 | #define pause {fprintf(stderr,"\nPress return or enter to continue -> ");gets(pm->junk);} | ^~~~ codons.c:204:35: note: in expansion of macro ‘pause’ 204 | if ( pm->codonW && pm->menu ) pause; | ^~~~~ codons.c: In function ‘toutput’: codons.c:640:25: warning: unknown conversion type character ‘=’ in format [-Wformat=] 640 | fprintf(pm->my_err, "%3li>\t%6li %-40.40s\tDNA\tGC%" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ codons.c:641:11: note: format string is defined here 641 | " =%5.3f\n" /* with G+C content and length of gene */ | ^ codons.c:647:42: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘long int’ [-Wformat=] 647 | fprintf(pm->my_err, "\t\t WARNING %d non IUBC standard characters " | ~^ | | | int | %ld 648 | "in sequence %i\n" 649 | ,non_std_char - IUBC_TOT | ~~~~~~~~~~~~~~~~~~~~~~~ | | | long int codons.c:647:27: warning: format ‘%i’ expects argument of type ‘int’, but argument 4 has type ‘long int’ [-Wformat=] 647 | fprintf(pm->my_err, "\t\t WARNING %d non IUBC standard characters " | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ...... 650 | ,num_sequence); | ~~~~~~~~~~~~ | | | long int codons.c:648:25: note: format string is defined here 648 | "in sequence %i\n" | ~^ | | | int | %li codons.c:652:30: warning: format ‘%i’ expects argument of type ‘int’, but argument 3 has type ‘long int’ [-Wformat=] 652 | fprintf(pm->my_err, "\t%3i>\t%6li %-40.40s\tPROTEIN\n" | ~~^ | | | int | %3li 653 | ,num_sequence | ~~~~~~~~~~~~ | | | long int codons.c:657:42: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘long int’ [-Wformat=] 657 | fprintf(pm->my_err, "\t\t WARNING %d non " | ~^ | | | int | %ld ...... 660 | ,non_std_char | ~~~~~~~~~~~~ | | | long int codons.c:657:27: warning: format ‘%i’ expects argument of type ‘int’, but argument 4 has type ‘long int’ [-Wformat=] 657 | fprintf(pm->my_err, "\t\t WARNING %d non " | ^~~~~~~~~~~~~~~~~~~~~~ ...... 661 | ,num_sequence); | ~~~~~~~~~~~~ | | | long int codons.c:659:25: note: format string is defined here 659 | "in sequence %i\n" | ~^ | | | int | %li codons.c: In function ‘output’: codons.c:800:34: warning: format ‘%s’ expects argument of type ‘char *’, but argument 3 has type ‘int’ [-Wformat=] 800 | fprintf(stderr, "ERROR-23 %s bulk undefined\n", pm->prog); | ~^ ~~~~~~~~ | | | | char * int | %d codons.c:805:32: warning: format ‘%s’ expects argument of type ‘char *’, but argument 3 has type ‘int’ [-Wformat=] 805 | fprintf(stderr, "ERROR-24 %s -prog undefined\n", pm->prog); | ~^ ~~~~~~~~ | | | | char * int | %d cc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wdate-time -D_FORTIFY_SOURCE=2 open_fil.c open_fil.c: In function ‘open_file’: open_fil.c:88:13: warning: implicit declaration of function ‘gets’; did you mean ‘fgets’? [-Wimplicit-function-declaration] 88 | gets(infile_name); /* get filename */ | ^~~~ | fgets open_fil.c:128:28: warning: field precision specifier ‘.*’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 128 | fprintf(stderr,"\nThese are the files in the current directory " | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 | "I cannot find %.*s \n\n",strlen(infile_name),infile_name); | ~~~~~~~~~~~~~~~~~~~ | | | size_t {aka long unsigned int} open_fil.c:129:34: note: format string is defined here 129 | "I cannot find %.*s \n\n",strlen(infile_name),infile_name); | ~~^~ | | | int open_fil.c:162:52: warning: field precision specifier ‘.*’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 162 | fprintf(stderr, "\nWarning :File %.*s " | ~~^~ | | | int ...... 165 | strlen(infile_name), infile_name); | ~~~~~~~~~~~~~~~~~~~ | | | size_t {aka long unsigned int} open_fil.c:166:17: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result] 166 | fgets(temp, 3, stdin); | ^~~~~~~~~~~~~~~~~~~~~ cc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wdate-time -D_FORTIFY_SOURCE=2 commline.c In file included from commline.c:28: commline.c: In function ‘proc_comm_line’: codonW.h:38:74: warning: implicit declaration of function ‘gets’; did you mean ‘fgets’? [-Wimplicit-function-declaration] 38 | #define pause {fprintf(stderr,"\nPress return or enter to continue -> ");gets(pm->junk);} | ^~~~ commline.c:103:2: note: in expansion of macro ‘pause’ 103 | pause; | ^~~~~ In file included from /usr/include/stdio.h:867, from commline.c:26: In function ‘printf’, inlined from ‘proc_comm_line’ at commline.c:620:5: /usr/include/x86_64-linux-gnu/bits/stdio2.h:107:10: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 107 | return __printf_chk (__USE_FORTIFY_LEVEL - 1, __fmt, __va_arg_pack ()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wdate-time -D_FORTIFY_SOURCE=2 menu.c In file included from menu.c:31: menu.c: In function ‘main_menu’: codonW.h:38:74: warning: implicit declaration of function ‘gets’; did you mean ‘fgets’? [-Wimplicit-function-declaration] 38 | #define pause {fprintf(stderr,"\nPress return or enter to continue -> ");gets(pm->junk);} | ^~~~ menu.c:69:9: note: in expansion of macro ‘pause’ 69 | pause; | ^~~~~ menu.c: In function ‘printinfo’: menu.c:1285:26: warning: field precision specifier ‘.*’ expects argument of type ‘int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1285 | printf("\tVersion : %.*s\n", strlen(Revision) , Revision ); | ~~^~ ~~~~~~~~~~~~~~~~ | | | | int size_t {aka long unsigned int} cc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wdate-time -D_FORTIFY_SOURCE=2 tester.c tester.c: In function ‘tester’: tester.c:88:17: warning: implicit declaration of function ‘gets’; did you mean ‘fgets’? [-Wimplicit-function-declaration] 88 | gets( pm->junk ) ; | ^~~~ | fgets cc -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wdate-time -D_FORTIFY_SOURCE=2 coresp.c coresp.c: In function ‘textbin’: coresp.c:98:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 98 | fscanf(pm->fcoa_in,"%s",pm->junk); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c:104:9: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 104 | fscanf(pm->fcoa_in,"%i",&v2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c:108:9: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 108 | fscanf(pm->fcoa_in,"%i\n",&v2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c:115:10: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 115 | fscanf(pm->fcoa_in,"%i",&v2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c:119:9: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 119 | fscanf(pm->fcoa_in,"%i\n",&v2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c:127:9: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 127 | fscanf(pm->fcoa_in,"%i",&v2); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c:131:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] 131 | fscanf(pm->fcoa_in,"%i\n",&v2); /* read last codon */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c: In function ‘rowout’: coresp.c:277:5: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result] 277 | fgets(pm->junk,BUFSIZ,fnam); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c: In function ‘inertialig’: coresp.c:1271:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result] 1271 | fgets(pm->junk,BUFSIZ,fnam); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c:1315:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result] 1315 | fgets(pm->junk,BUFSIZ,fnam); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ coresp.c: In function ‘suprow’: coresp.c:1619:7: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result [-Wunused-result] 1619 | fgets(pm->junk,BUFSIZ,fnam); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -DLINUX -Wl,-z,relro -Wl,-z,now codon_us.o codons.o open_fil.o commline.o menu.o tester.o coresp.o -o codonw -lm /usr/bin/ld: codon_us.o: in function `cai_out': ./codon_us.c:652: warning: the `gets' function is dangerous and should not be used. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -a dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>' mkdir -p debian/codonw/usr/bin cp codonw debian/codonw/usr/bin mkdir -p debian/codonw/usr/share/codonw cp codonW.hlp debian/codonw/usr/share/codonw chmod -x debian/codonw/usr/share/codonw/codonW.hlp make[1]: Leaving directory '/<>' dh_install -a debian/rules override_dh_installdocs make[1]: Entering directory '/<>' mkdir -p debian/codonw/usr/share/doc/codonw cp *.txt debian/codonw/usr/share/doc/codonw mkdir -p debian/codonw/usr/share/doc-base cp debian/doc-base debian/codonw/usr/share/doc-base/codonw-doc dh_installdocs -- make[1]: Leaving directory '/<>' dh_installchangelogs -a dh_installexamples -a debian/rules override_dh_installman make[1]: Entering directory '/<>' mkdir -p /<>/debian/man help2man -n 'Correspondence Analysis of Codon Usage' -N --help-option=-h \ --version-string=1.4.4 ./codonw > /<>/debian/man/codonw.1 /<>/debian/make_man.pl /<>/debian/template.man \ /<>/debian/man calculate Relative Amino Acid Usage (RAAU) calculate codon usage calculate Effective Number of Codons (ENc) tabulation of datasets codon usage detailed report of base composition output sequence in reader format silent base G+C+A+T calculating program calculate Codon Adaptation Index (CAI) GC of synonymous codons 3rd positions calculate Amino Acid Usage (AAU) clean up sequence in FASTA format tabulation of codon usage G+C content of gene (all 3 codon positions) calculate Relative Synonymous Codon Usage (RSCU) calculate Codon Bias Index (CBI) dinucleotide usage of the three codon positions conceptual translation of DNA to amino acid calculate Frequency of OPtimal codons index (FOP) dh_installman -- make[1]: Leaving directory '/<>' dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms chmod -x debian/codonw/usr/share/doc/codonw/examples/input.dat make[1]: Leaving directory '/<>' dh_missing -a dh_dwz -a -a dh_strip -a -a mipsel-linux-gnu-objcopy: Unable to recognise the format of the input file `debian/codonw/usr/bin/codonw' dh_strip: error: mipsel-linux-gnu-objcopy --only-keep-debug --compress-debug-sections debian/codonw/usr/bin/codonw debian/.debhelper/codonw/dbgsym-root/usr/lib/debug/.build-id/a1/a6ad2e162313f9842e741b57e79d2b95d61325.debug returned exit code 1 dh_strip: error: Aborting due to earlier error make: *** [debian/rules:7: binary-arch] Error 25 dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 2020-05-17T12:01:55Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 3484 Build-Time: 6 Distribution: unstable Fail-Stage: build Foreign Architectures: mipsel Host Architecture: mipsel Install-Time: 16 Job: codonw_1.4.4-5 Machine Architecture: amd64 Package: codonw Package-Time: 32 Source-Version: 1.4.4-5 Space: 3484 Status: attempted Version: 1.4.4-5 -------------------------------------------------------------------------------- Finished at 2020-05-17T12:01:55Z Build needed 00:00:32, 3484k disk space