sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on gcc131.bak.milne.osuosl.org +==============================================================================+ | phast 1.5+dfsg-1 (armhf) Fri, 08 Feb 2019 08:54:18 +0000 | +==============================================================================+ Package: phast Version: 1.5+dfsg-1 Source Version: 1.5+dfsg-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: armhf Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-8b9dca38-a479-49a8-8ada-dc4b55c6aab8' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [243 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 2019-02-08-0813.48.pdiff [6912 B] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-02-08-0813.48.pdiff [34.2 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2019-02-08-0813.48.pdiff [6912 B] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-02-08-0813.48.pdiff [34.2 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main armhf Packages [8094 kB] Fetched 8434 kB in 2s (4912 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 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 4432 kB of archives. After this operation, 7168 B of additional disk space will be used. Get:1 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-12 [1825 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 binutils amd64 2.31.1-12 [56.4 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libbinutils amd64 2.31.1-12 [479 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-common amd64 2.31.1-12 [2072 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 4432 kB in 0s (82.5 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 ... 11799 files and directories currently installed.) Preparing to unpack .../binutils-x86-64-linux-gnu_2.31.1-12_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.31.1-12) over (2.31.1-11) ... Preparing to unpack .../binutils_2.31.1-12_amd64.deb ... Unpacking binutils (2.31.1-12) over (2.31.1-11) ... Preparing to unpack .../libbinutils_2.31.1-12_amd64.deb ... Unpacking libbinutils:amd64 (2.31.1-12) over (2.31.1-11) ... Preparing to unpack .../binutils-common_2.31.1-12_amd64.deb ... Unpacking binutils-common:amd64 (2.31.1-12) over (2.31.1-11) ... Setting up binutils-common:amd64 (2.31.1-12) ... Setting up libbinutils:amd64 (2.31.1-12) ... Setting up binutils-x86-64-linux-gnu (2.31.1-12) ... Setting up binutils (2.31.1-12) ... Processing triggers for libc-bin (2.28-6) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'phast' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/phast.git Please use: git clone https://salsa.debian.org/med-team/phast.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1866 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main phast 1.5+dfsg-1 (dsc) [1988 B] Get:2 http://debian.oregonstate.edu/debian unstable/main phast 1.5+dfsg-1 (tar) [1811 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main phast 1.5+dfsg-1 (diff) [53.1 kB] Fetched 1866 kB in 0s (77.2 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/phast-4H1rUx/phast-1.5+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/phast-4H1rUx' with '<>' +------------------------------------------------------------------------------+ | Install crossbuild-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64 Filtered Build-Depends: build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64 dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-PgvEbI/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-PgvEbI/apt_archive ./ InRelease Get:2 copy:/<>/resolver-PgvEbI/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-PgvEbI/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-PgvEbI/apt_archive ./ Sources [363 B] Get:5 copy:/<>/resolver-PgvEbI/apt_archive ./ Packages [452 B] Fetched 1772 B in 0s (0 B/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: binutils-arm-linux-gnueabihf cpp-8-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf dpkg-cross file g++-8-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-8-arm-linux-gnueabihf gcc-8-arm-linux-gnueabihf-base gcc-8-cross-base gcc-arm-linux-gnueabihf libasan5-armhf-cross libatomic1-armhf-cross libc6-armhf-cross libc6-dev-armhf-cross libconfig-auto-perl libconfig-inifiles-perl libdebian-dpkgcross-perl libfile-homedir-perl libfile-which-perl libgcc-8-dev-armhf-cross libgcc1-armhf-cross libgomp1-armhf-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libstdc++-8-dev-armhf-cross libstdc++6-armhf-cross libubsan1-armhf-cross libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev-armhf-cross sensible-utils ucf Suggested packages: binutils-doc gcc-8-locales cpp-doc binutils-multiarch gcc-8-doc libstdc++6-8-dbg-armhf-cross libgcc1-dbg-armhf-cross libgomp1-dbg-armhf-cross libitm1-dbg-armhf-cross libatomic1-dbg-armhf-cross libasan5-dbg-armhf-cross liblsan0-dbg-armhf-cross libtsan0-dbg-armhf-cross libubsan1-dbg-armhf-cross libmpx2-dbg-armhf-cross libquadmath0-dbg-armhf-cross manpages-dev autoconf automake libtool flex bison gdb-arm-linux-gnueabihf gcc-doc libyaml-shell-perl Recommended packages: libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl The following NEW packages will be installed: binutils-arm-linux-gnueabihf cpp-8-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf dpkg-cross file g++-8-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-8-arm-linux-gnueabihf gcc-8-arm-linux-gnueabihf-base gcc-8-cross-base gcc-arm-linux-gnueabihf libasan5-armhf-cross libatomic1-armhf-cross libc6-armhf-cross libc6-dev-armhf-cross libconfig-auto-perl libconfig-inifiles-perl libdebian-dpkgcross-perl libfile-homedir-perl libfile-which-perl libgcc-8-dev-armhf-cross libgcc1-armhf-cross libgomp1-armhf-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libstdc++-8-dev-armhf-cross libstdc++6-armhf-cross libubsan1-armhf-cross libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev-armhf-cross sbuild-build-depends-core-dummy:armhf sensible-utils ucf 0 upgraded, 44 newly installed, 0 to remove and 0 not upgraded. Need to get 41.7 MB of archives. After this operation, 152 MB of additional disk space will be used. Get:1 copy:/<>/resolver-PgvEbI/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [872 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-3+b4 [18.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.35-2 [242 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.35-2 [117 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.35-2 [66.1 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.31.1-12 [2832 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-arm-linux-gnueabihf-base amd64 8.2.0-11cross1 [188 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-8-arm-linux-gnueabihf amd64 8.2.0-11cross1 [6550 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:8.2.0-2 [16.4 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-2 [39.7 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-cross-base all 8.2.0-11cross1 [183 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.28-4cross1 [1170 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc1-armhf-cross all 1:8.2.0-11cross1 [37.1 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 8.2.0-11cross1 [63.2 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 8.2.0-11cross1 [6568 B] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 8.2.0-11cross1 [301 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armhf-cross all 8.2.0-11cross1 [330 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 8.2.0-11cross1 [104 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-8-dev-armhf-cross all 8.2.0-11cross1 [613 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-arm-linux-gnueabihf amd64 8.2.0-11cross1 [6960 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:8.2.0-2 [1456 B] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 4.19.13-1cross1 [1196 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.28-4cross1 [2148 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-8-dev-armhf-cross all 8.2.0-11cross1 [1547 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 g++-8-arm-linux-gnueabihf amd64 8.2.0-11cross1 [7125 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:8.2.0-2 [1180 B] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000001-1 [51.9 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.1-6 [8292 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-7+b3 [687 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.00+dfsg-1 [58.6 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0133+dfsg-1 [344 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.27-1 [66.8 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-2 [38.5 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-2 [49.3 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.5 [6544 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 41.7 MB in 1s (56.6 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 11799 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-3+b4_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-3+b4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.35-2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../03-libmagic1_1%3a5.35-2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-2) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.35-2_amd64.deb ... Unpacking file (1:5.35-2) ... Selecting previously unselected package ucf. Preparing to unpack .../05-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package binutils-arm-linux-gnueabihf. Preparing to unpack .../06-binutils-arm-linux-gnueabihf_2.31.1-12_amd64.deb ... Unpacking binutils-arm-linux-gnueabihf (2.31.1-12) ... Selecting previously unselected package gcc-8-arm-linux-gnueabihf-base:amd64. Preparing to unpack .../07-gcc-8-arm-linux-gnueabihf-base_8.2.0-11cross1_amd64.deb ... Unpacking gcc-8-arm-linux-gnueabihf-base:amd64 (8.2.0-11cross1) ... Selecting previously unselected package cpp-8-arm-linux-gnueabihf. Preparing to unpack .../08-cpp-8-arm-linux-gnueabihf_8.2.0-11cross1_amd64.deb ... Unpacking cpp-8-arm-linux-gnueabihf (8.2.0-11cross1) ... Selecting previously unselected package cpp-arm-linux-gnueabihf. Preparing to unpack .../09-cpp-arm-linux-gnueabihf_4%3a8.2.0-2_amd64.deb ... Unpacking cpp-arm-linux-gnueabihf (4:8.2.0-2) ... Selecting previously unselected package cross-config. Preparing to unpack .../10-cross-config_2.6.15-2_all.deb ... Unpacking cross-config (2.6.15-2) ... Selecting previously unselected package gcc-8-cross-base. Preparing to unpack .../11-gcc-8-cross-base_8.2.0-11cross1_all.deb ... Unpacking gcc-8-cross-base (8.2.0-11cross1) ... Selecting previously unselected package libc6-armhf-cross. Preparing to unpack .../12-libc6-armhf-cross_2.28-4cross1_all.deb ... Unpacking libc6-armhf-cross (2.28-4cross1) ... Selecting previously unselected package libgcc1-armhf-cross. Preparing to unpack .../13-libgcc1-armhf-cross_1%3a8.2.0-11cross1_all.deb ... Unpacking libgcc1-armhf-cross (1:8.2.0-11cross1) ... Selecting previously unselected package libgomp1-armhf-cross. Preparing to unpack .../14-libgomp1-armhf-cross_8.2.0-11cross1_all.deb ... Unpacking libgomp1-armhf-cross (8.2.0-11cross1) ... Selecting previously unselected package libatomic1-armhf-cross. Preparing to unpack .../15-libatomic1-armhf-cross_8.2.0-11cross1_all.deb ... Unpacking libatomic1-armhf-cross (8.2.0-11cross1) ... Selecting previously unselected package libstdc++6-armhf-cross. Preparing to unpack .../16-libstdc++6-armhf-cross_8.2.0-11cross1_all.deb ... Unpacking libstdc++6-armhf-cross (8.2.0-11cross1) ... Selecting previously unselected package libasan5-armhf-cross. Preparing to unpack .../17-libasan5-armhf-cross_8.2.0-11cross1_all.deb ... Unpacking libasan5-armhf-cross (8.2.0-11cross1) ... Selecting previously unselected package libubsan1-armhf-cross. Preparing to unpack .../18-libubsan1-armhf-cross_8.2.0-11cross1_all.deb ... Unpacking libubsan1-armhf-cross (8.2.0-11cross1) ... Selecting previously unselected package libgcc-8-dev-armhf-cross. Preparing to unpack .../19-libgcc-8-dev-armhf-cross_8.2.0-11cross1_all.deb ... Unpacking libgcc-8-dev-armhf-cross (8.2.0-11cross1) ... Selecting previously unselected package gcc-8-arm-linux-gnueabihf. Preparing to unpack .../20-gcc-8-arm-linux-gnueabihf_8.2.0-11cross1_amd64.deb ... Unpacking gcc-8-arm-linux-gnueabihf (8.2.0-11cross1) ... Selecting previously unselected package gcc-arm-linux-gnueabihf. Preparing to unpack .../21-gcc-arm-linux-gnueabihf_4%3a8.2.0-2_amd64.deb ... Unpacking gcc-arm-linux-gnueabihf (4:8.2.0-2) ... Selecting previously unselected package linux-libc-dev-armhf-cross. Preparing to unpack .../22-linux-libc-dev-armhf-cross_4.19.13-1cross1_all.deb ... Unpacking linux-libc-dev-armhf-cross (4.19.13-1cross1) ... Selecting previously unselected package libc6-dev-armhf-cross. Preparing to unpack .../23-libc6-dev-armhf-cross_2.28-4cross1_all.deb ... Unpacking libc6-dev-armhf-cross (2.28-4cross1) ... Selecting previously unselected package libstdc++-8-dev-armhf-cross. Preparing to unpack .../24-libstdc++-8-dev-armhf-cross_8.2.0-11cross1_all.deb ... Unpacking libstdc++-8-dev-armhf-cross (8.2.0-11cross1) ... Selecting previously unselected package g++-8-arm-linux-gnueabihf. Preparing to unpack .../25-g++-8-arm-linux-gnueabihf_8.2.0-11cross1_amd64.deb ... Unpacking g++-8-arm-linux-gnueabihf (8.2.0-11cross1) ... Selecting previously unselected package g++-arm-linux-gnueabihf. Preparing to unpack .../26-g++-arm-linux-gnueabihf_4%3a8.2.0-2_amd64.deb ... Unpacking g++-arm-linux-gnueabihf (4:8.2.0-2) ... Selecting previously unselected package libconfig-inifiles-perl. Preparing to unpack .../27-libconfig-inifiles-perl_3.000001-1_all.deb ... Unpacking libconfig-inifiles-perl (3.000001-1) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../28-libio-string-perl_1.08-3_all.deb ... Unpacking libio-string-perl (1.08-3) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../29-libicu63_63.1-6_amd64.deb ... Unpacking libicu63:amd64 (63.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../30-libxml2_2.9.4+dfsg1-7+b3_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../31-libxml-namespacesupport-perl_1.12-1_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../32-libxml-sax-base-perl_1.09-1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../33-libxml-sax-perl_1.00+dfsg-1_all.deb ... Unpacking libxml-sax-perl (1.00+dfsg-1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../34-libxml-libxml-perl_2.0133+dfsg-1_amd64.deb ... Unpacking libxml-libxml-perl (2.0133+dfsg-1) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../35-libxml-simple-perl_2.25-1_all.deb ... Unpacking libxml-simple-perl (2.25-1) ... Selecting previously unselected package libyaml-perl. Preparing to unpack .../36-libyaml-perl_1.27-1_all.deb ... Unpacking libyaml-perl (1.27-1) ... Selecting previously unselected package libconfig-auto-perl. Preparing to unpack .../37-libconfig-auto-perl_0.44-1_all.deb ... Unpacking libconfig-auto-perl (0.44-1) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../38-libfile-which-perl_1.23-1_all.deb ... Unpacking libfile-which-perl (1.23-1) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../39-libfile-homedir-perl_1.004-1_all.deb ... Unpacking libfile-homedir-perl (1.004-1) ... Selecting previously unselected package libdebian-dpkgcross-perl. Preparing to unpack .../40-libdebian-dpkgcross-perl_2.6.15-2_all.deb ... Unpacking libdebian-dpkgcross-perl (2.6.15-2) ... Selecting previously unselected package dpkg-cross. Preparing to unpack .../41-dpkg-cross_2.6.15-2_all.deb ... Unpacking dpkg-cross (2.6.15-2) ... Selecting previously unselected package crossbuild-essential-armhf. Preparing to unpack .../42-crossbuild-essential-armhf_12.5_all.deb ... Unpacking crossbuild-essential-armhf (12.5) ... Selecting previously unselected package sbuild-build-depends-core-dummy:armhf. Preparing to unpack .../43-sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-core-dummy:armhf (0.invalid.0) ... Setting up gcc-8-cross-base (8.2.0-11cross1) ... Setting up libc6-armhf-cross (2.28-4cross1) ... Setting up libgcc1-armhf-cross (1:8.2.0-11cross1) ... Setting up libstdc++6-armhf-cross (8.2.0-11cross1) ... Setting up libconfig-inifiles-perl (3.000001-1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up libicu63:amd64 (63.1-6) ... Setting up libfile-which-perl (1.23-1) ... Setting up libubsan1-armhf-cross (8.2.0-11cross1) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up binutils-arm-linux-gnueabihf (2.31.1-12) ... Setting up libyaml-perl (1.27-1) ... Setting up libgomp1-armhf-cross (8.2.0-11cross1) ... Setting up linux-libc-dev-armhf-cross (4.19.13-1cross1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+b3) ... Setting up libatomic1-armhf-cross (8.2.0-11cross1) ... Setting up libmagic-mgc (1:5.35-2) ... Setting up libmagic1:amd64 (1:5.35-2) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up sensible-utils (0.0.12) ... Setting up cross-config (2.6.15-2) ... Setting up libio-string-perl (1.08-3) ... Setting up liblocale-gettext-perl (1.07-3+b4) ... Setting up gcc-8-arm-linux-gnueabihf-base:amd64 (8.2.0-11cross1) ... Setting up libasan5-armhf-cross (8.2.0-11cross1) ... Setting up libgcc-8-dev-armhf-cross (8.2.0-11cross1) ... Setting up libc6-dev-armhf-cross (2.28-4cross1) ... Setting up file (1:5.35-2) ... Setting up ucf (3.0038+nmu1) ... Setting up libstdc++-8-dev-armhf-cross (8.2.0-11cross1) ... Setting up cpp-8-arm-linux-gnueabihf (8.2.0-11cross1) ... Setting up cpp-arm-linux-gnueabihf (4:8.2.0-2) ... Setting up gcc-8-arm-linux-gnueabihf (8.2.0-11cross1) ... Setting up gcc-arm-linux-gnueabihf (4:8.2.0-2) ... Setting up libxml-sax-perl (1.00+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 g++-8-arm-linux-gnueabihf (8.2.0-11cross1) ... Setting up libxml-libxml-perl (2.0133+dfsg-1) ... 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 g++-arm-linux-gnueabihf (4:8.2.0-2) ... Setting up libxml-simple-perl (2.25-1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-2) ... Setting up dpkg-cross (2.6.15-2) ... Setting up crossbuild-essential-armhf (12.5) ... Setting up sbuild-build-depends-core-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.28-6) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) Setup apt archive ----------------- dpkg-deb: building package 'sbuild-build-depends-essential-dummy' in '/<>/resolver-PgvEbI/apt_archive/sbuild-build-depends-essential-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-PgvEbI/apt_archive ./ InRelease Get:2 copy:/<>/resolver-PgvEbI/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-PgvEbI/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-PgvEbI/apt_archive ./ Sources [485 B] Get:5 copy:/<>/resolver-PgvEbI/apt_archive ./ Packages [568 B] Fetched 2016 B in 0s (110 kB/s) Reading package lists... Reading package lists... Install essential build dependencies (apt-based resolver) --------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-essential-dummy:armhf 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 840 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-PgvEbI/apt_archive ./ sbuild-build-depends-essential-dummy 0.invalid.0 [840 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 840 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-essential-dummy:armhf. (Reading database ... 14845 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-essential-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-essential-dummy:armhf (0.invalid.0) ... Setting up sbuild-build-depends-essential-dummy:armhf (0.invalid.0) ... +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: libc-dev, libstdc++-dev, debhelper (>= 11~), liblapack-dev, libblas-dev, libtmglib-dev, libpcre3-dev, help2man Filtered Build-Depends: libc-dev, libstdc++-dev, debhelper (>= 11~), liblapack-dev, libblas-dev, libtmglib-dev, libpcre3-dev, help2man dpkg-deb: building package 'sbuild-build-depends-phast-dummy' in '/<>/resolver-PgvEbI/apt_archive/sbuild-build-depends-phast-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy sbuild-build-depends-phast-dummy dpkg-scanpackages: info: Wrote 3 entries to output Packages file. Ign:1 copy:/<>/resolver-PgvEbI/apt_archive ./ InRelease Get:2 copy:/<>/resolver-PgvEbI/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-PgvEbI/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-PgvEbI/apt_archive ./ Sources [661 B] Get:5 copy:/<>/resolver-PgvEbI/apt_archive ./ Packages [740 B] Fetched 2364 B in 0s (132 kB/s) Reading package lists... Reading package lists... Install phast 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 bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism dwz gcc-8-base:armhf gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libasan5:armhf libatomic1:armhf libblas-dev:armhf libblas3:armhf libbsd0 libc6:armhf libc6-dev:armhf libcroco3 libelf1 libfile-stripnondeterminism-perl libgcc-8-dev:armhf libgcc1:armhf libgfortran5:armhf libglib2.0-0 libgomp1:armhf liblapack-dev:armhf liblapack3:armhf libncurses6 libpcre16-3:armhf libpcre3:armhf libpcre3-dev:armhf libpcre32-3:armhf libpcrecpp0v5:armhf libpipeline1 libsigsegv2 libstdc++-8-dev:armhf libstdc++6:armhf libtmglib-dev:armhf libtmglib3:armhf libtool libubsan1:armhf libuchardet0 linux-libc-dev:armhf m4 man-db po-debconf zlib1g:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff liblapack-doc:armhf glibc-doc:armhf libc-l10n:armhf locales:armhf manpages-dev:armhf libstdc++-8-doc:armhf libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:armhf libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgpm2 libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism dwz gcc-8-base:armhf gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libasan5:armhf libatomic1:armhf libblas-dev:armhf libblas3:armhf libbsd0 libc6:armhf libc6-dev:armhf libcroco3 libelf1 libfile-stripnondeterminism-perl libgcc-8-dev:armhf libgcc1:armhf libgfortran5:armhf libglib2.0-0 libgomp1:armhf liblapack-dev:armhf liblapack3:armhf libncurses6 libpcre16-3:armhf libpcre3:armhf libpcre3-dev:armhf libpcre32-3:armhf libpcrecpp0v5:armhf libpipeline1 libsigsegv2 libstdc++-8-dev:armhf libstdc++6:armhf libtmglib-dev:armhf libtmglib3:armhf libtool libubsan1:armhf libuchardet0 linux-libc-dev:armhf m4 man-db po-debconf sbuild-build-depends-phast-dummy:armhf zlib1g:armhf 0 upgraded, 54 newly installed, 0 to remove and 0 not upgraded. Need to get 24.2 MB of archives. After this operation, 95.4 MB of additional disk space will be used. Get:1 copy:/<>/resolver-PgvEbI/apt_archive ./ sbuild-build-depends-phast-dummy 0.invalid.0 [904 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.9.1-1 [99.3 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 1.22.4-2 [917 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.1-1 [31.2 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.8.5-1 [1274 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-2 [203 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11 [341 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.1-4 [771 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-9 [547 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.1.0-1 [19.5 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.1.0-1 [12.6 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.175-2 [160 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.12-3 [78.0 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.58.3-1 [1258 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.1+20181013-1 [102 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 12 [1002 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main armhf gcc-8-base armhf 8.2.0-17 [189 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 help2man amd64 1.47.8 [177 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main armhf libgcc1 armhf 1:8.2.0-17 [37.2 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.28-6 [2387 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 8.2.0-17 [337 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 8.2.0-17 [337 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 8.2.0-17 [6736 B] Get:36 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-1 [87.9 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main armhf libgfortran5 armhf 8.2.0-17 [212 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main armhf libblas3 armhf 3.8.0-2 [109 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main armhf libblas-dev armhf 3.8.0-2 [117 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 4.19.16-1 [1113 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.28-6 [2151 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 8.2.0-17 [64.7 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 8.2.0-17 [105 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-8-dev armhf 8.2.0-17 [613 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main armhf liblapack3 armhf 3.8.0-2 [1631 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main armhf liblapack-dev armhf 3.8.0-2 [1680 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main armhf libpcre16-3 armhf 2:8.39-11 [238 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main armhf libpcre3 armhf 2:8.39-11 [317 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main armhf libpcre32-3 armhf 2:8.39-11 [231 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main armhf libpcrecpp0v5 armhf 2:8.39-11 [150 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main armhf libpcre3-dev armhf 2:8.39-11 [585 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-8-dev armhf 8.2.0-17 [1579 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main armhf libtmglib3 armhf 3.8.0-2 [97.2 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main armhf libtmglib-dev armhf 3.8.0-2 [100 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 24.2 MB in 0s (57.7 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 14845 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-1) ... 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_1.22.4-2_amd64.deb ... Unpacking groff-base (1.22.4-2) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.1-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.1-1) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.8.5-1_amd64.deb ... Unpacking man-db (2.8.5-1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.19.8.1-9_amd64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../07-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../08-m4_1.4.18-2_amd64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../09-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../10-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../11-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../12-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package libtool. Preparing to unpack .../13-libtool_2.4.6-9_all.deb ... Unpacking libtool (2.4.6-9) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../14-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../15-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../16-libfile-stripnondeterminism-perl_1.1.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../17-dh-strip-nondeterminism_1.1.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.0-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../18-libelf1_0.175-2_amd64.deb ... Unpacking libelf1:amd64 (0.175-2) ... Selecting previously unselected package dwz. Preparing to unpack .../19-dwz_0.12-3_amd64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../20-libglib2.0-0_2.58.3-1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.58.3-1) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../21-libcroco3_0.6.12-3_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-3) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../22-libncurses6_6.1+20181013-1_amd64.deb ... Unpacking libncurses6:amd64 (6.1+20181013-1) ... Selecting previously unselected package gettext. Preparing to unpack .../23-gettext_0.19.8.1-9_amd64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../24-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../25-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../26-debhelper_12_all.deb ... Unpacking debhelper (12) ... Selecting previously unselected package gcc-8-base:armhf. Preparing to unpack .../27-gcc-8-base_8.2.0-17_armhf.deb ... Unpacking gcc-8-base:armhf (8.2.0-17) ... Selecting previously unselected package help2man. Preparing to unpack .../28-help2man_1.47.8_amd64.deb ... Unpacking help2man (1.47.8) ... Selecting previously unselected package libgcc1:armhf. Preparing to unpack .../29-libgcc1_1%3a8.2.0-17_armhf.deb ... Unpacking libgcc1:armhf (1:8.2.0-17) ... Selecting previously unselected package libc6:armhf. Preparing to unpack .../30-libc6_2.28-6_armhf.deb ... Unpacking libc6:armhf (2.28-6) ... Selecting previously unselected package libstdc++6:armhf. Preparing to unpack .../31-libstdc++6_8.2.0-17_armhf.deb ... Unpacking libstdc++6:armhf (8.2.0-17) ... Selecting previously unselected package libasan5:armhf. Preparing to unpack .../32-libasan5_8.2.0-17_armhf.deb ... Unpacking libasan5:armhf (8.2.0-17) ... Selecting previously unselected package libatomic1:armhf. Preparing to unpack .../33-libatomic1_8.2.0-17_armhf.deb ... Unpacking libatomic1:armhf (8.2.0-17) ... Selecting previously unselected package zlib1g:armhf. Preparing to unpack .../34-zlib1g_1%3a1.2.11.dfsg-1_armhf.deb ... Unpacking zlib1g:armhf (1:1.2.11.dfsg-1) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../35-libgfortran5_8.2.0-17_armhf.deb ... Unpacking libgfortran5:armhf (8.2.0-17) ... Selecting previously unselected package libblas3:armhf. Preparing to unpack .../36-libblas3_3.8.0-2_armhf.deb ... Unpacking libblas3:armhf (3.8.0-2) ... Selecting previously unselected package libblas-dev:armhf. Preparing to unpack .../37-libblas-dev_3.8.0-2_armhf.deb ... Unpacking libblas-dev:armhf (3.8.0-2) ... Selecting previously unselected package linux-libc-dev:armhf. Preparing to unpack .../38-linux-libc-dev_4.19.16-1_armhf.deb ... Unpacking linux-libc-dev:armhf (4.19.16-1) ... Selecting previously unselected package libc6-dev:armhf. Preparing to unpack .../39-libc6-dev_2.28-6_armhf.deb ... Unpacking libc6-dev:armhf (2.28-6) ... Selecting previously unselected package libgomp1:armhf. Preparing to unpack .../40-libgomp1_8.2.0-17_armhf.deb ... Unpacking libgomp1:armhf (8.2.0-17) ... Selecting previously unselected package libubsan1:armhf. Preparing to unpack .../41-libubsan1_8.2.0-17_armhf.deb ... Unpacking libubsan1:armhf (8.2.0-17) ... Selecting previously unselected package libgcc-8-dev:armhf. Preparing to unpack .../42-libgcc-8-dev_8.2.0-17_armhf.deb ... Unpacking libgcc-8-dev:armhf (8.2.0-17) ... Selecting previously unselected package liblapack3:armhf. Preparing to unpack .../43-liblapack3_3.8.0-2_armhf.deb ... Unpacking liblapack3:armhf (3.8.0-2) ... Selecting previously unselected package liblapack-dev:armhf. Preparing to unpack .../44-liblapack-dev_3.8.0-2_armhf.deb ... Unpacking liblapack-dev:armhf (3.8.0-2) ... Selecting previously unselected package libpcre16-3:armhf. Preparing to unpack .../45-libpcre16-3_2%3a8.39-11_armhf.deb ... Unpacking libpcre16-3:armhf (2:8.39-11) ... Selecting previously unselected package libpcre3:armhf. Preparing to unpack .../46-libpcre3_2%3a8.39-11_armhf.deb ... Unpacking libpcre3:armhf (2:8.39-11) ... Selecting previously unselected package libpcre32-3:armhf. Preparing to unpack .../47-libpcre32-3_2%3a8.39-11_armhf.deb ... Unpacking libpcre32-3:armhf (2:8.39-11) ... Selecting previously unselected package libpcrecpp0v5:armhf. Preparing to unpack .../48-libpcrecpp0v5_2%3a8.39-11_armhf.deb ... Unpacking libpcrecpp0v5:armhf (2:8.39-11) ... Selecting previously unselected package libpcre3-dev:armhf. Preparing to unpack .../49-libpcre3-dev_2%3a8.39-11_armhf.deb ... Unpacking libpcre3-dev:armhf (2:8.39-11) ... Selecting previously unselected package libstdc++-8-dev:armhf. Preparing to unpack .../50-libstdc++-8-dev_8.2.0-17_armhf.deb ... Unpacking libstdc++-8-dev:armhf (8.2.0-17) ... Selecting previously unselected package libtmglib3:armhf. Preparing to unpack .../51-libtmglib3_3.8.0-2_armhf.deb ... Unpacking libtmglib3:armhf (3.8.0-2) ... Selecting previously unselected package libtmglib-dev:armhf. Preparing to unpack .../52-libtmglib-dev_3.8.0-2_armhf.deb ... Unpacking libtmglib-dev:armhf (3.8.0-2) ... Selecting previously unselected package sbuild-build-depends-phast-dummy:armhf. Preparing to unpack .../53-sbuild-build-depends-phast-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-phast-dummy:armhf (0.invalid.0) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libelf1:amd64 (0.175-2) ... Setting up libglib2.0-0:amd64 (2.58.3-1) ... No schema files found: doing nothing. Setting up linux-libc-dev:armhf (4.19.16-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up libpipeline1:amd64 (1.5.1-1) ... Setting up m4 (1.4.18-2) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up dwz (0.12-3) ... Setting up autotools-dev (20180224.1) ... Setting up gcc-8-base:armhf (8.2.0-17) ... Setting up help2man (1.47.8) ... 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 libncurses6:amd64 (6.1+20181013-1) ... Setting up autopoint (0.19.8.1-9) ... Setting up libfile-stripnondeterminism-perl (1.1.0-1) ... Setting up libtool (2.4.6-9) ... Setting up gettext (0.19.8.1-9) ... Setting up groff-base (1.22.4-2) ... Setting up autoconf (2.69-11) ... Setting up intltool-debian (0.35.0+20060710.5) ... 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 man-db (2.8.5-1) ... Not building database; man-db/auto-update is not 'true'. Setting up po-debconf (1.0.21) ... Setting up libc6:armhf (2.28-6) ... Setting up libpcre3:armhf (2:8.39-11) ... Setting up libpcre32-3:armhf (2:8.39-11) ... Setting up libpcre16-3:armhf (2:8.39-11) ... Setting up libc6-dev:armhf (2.28-6) ... Setting up libgcc1:armhf (1:8.2.0-17) ... Setting up libgomp1:armhf (8.2.0-17) ... Setting up libatomic1:armhf (8.2.0-17) ... Setting up dh-autoreconf (19) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-1) ... Setting up dh-strip-nondeterminism (1.1.0-1) ... Setting up libstdc++6:armhf (8.2.0-17) ... Setting up libasan5:armhf (8.2.0-17) ... Setting up libgfortran5:armhf (8.2.0-17) ... Setting up libubsan1:armhf (8.2.0-17) ... Setting up debhelper (12) ... Setting up libblas3:armhf (3.8.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libpcrecpp0v5:armhf (2:8.39-11) ... Setting up libgcc-8-dev:armhf (8.2.0-17) ... Setting up libstdc++-8-dev:armhf (8.2.0-17) ... Setting up libpcre3-dev:armhf (2:8.39-11) ... Setting up libblas-dev:armhf (3.8.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode Setting up liblapack3:armhf (3.8.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up liblapack-dev:armhf (3.8.0-2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode Setting up libtmglib3:armhf (3.8.0-2) ... Setting up libtmglib-dev:armhf (3.8.0-2) ... Setting up sbuild-build-depends-phast-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.28-6) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-8-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.31.1-12 dpkg-dev_1.19.4 g++-8_8.2.0-17 gcc-8_8.2.0-17 libc6-dev_2.28-6 libstdc++-8-dev_8.2.0-17 libstdc++-8-dev-armhf-cross_8.2.0-11cross1 libstdc++6_8.2.0-17 libstdc++6-armhf-cross_8.2.0-11cross1 linux-libc-dev_4.19.16-1 Package versions: adduser_3.118 apt_1.8.0~rc2 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1 base-passwd_3.5.45 bash_5.0-2 binutils_2.31.1-12 binutils-arm-linux-gnueabihf_2.31.1-12 binutils-common_2.31.1-12 binutils-x86-64-linux-gnu_2.31.1-12 bsdmainutils_11.1.2+b1 bsdutils_1:2.33.1-0.1 build-essential_12.5 bzip2_1.0.6-9 coreutils_8.30-1 cpp_4:8.2.0-2 cpp-8_8.2.0-17 cpp-8-arm-linux-gnueabihf_8.2.0-11cross1 cpp-arm-linux-gnueabihf_4:8.2.0-2 cross-config_2.6.15-2 crossbuild-essential-armhf_12.5 dash_0.5.10.2-5 debconf_1.5.70 debhelper_12 debian-archive-keyring_2018.1 debianutils_4.8.6.1 dh-autoreconf_19 dh-strip-nondeterminism_1.1.0-1 diffutils_1:3.6-1 dpkg_1.19.4 dpkg-cross_2.6.15-2 dpkg-dev_1.19.4 dwz_0.12-3 e2fsprogs_1.44.5-1 fakeroot_1.23-1 fdisk_2.33.1-0.1 file_1:5.35-2 findutils_4.6.0+git+20190105-2 g++_4:8.2.0-2 g++-8_8.2.0-17 g++-8-arm-linux-gnueabihf_8.2.0-11cross1 g++-arm-linux-gnueabihf_4:8.2.0-2 gcc_4:8.2.0-2 gcc-8_8.2.0-17 gcc-8-arm-linux-gnueabihf_8.2.0-11cross1 gcc-8-arm-linux-gnueabihf-base_8.2.0-11cross1 gcc-8-base_8.2.0-17 gcc-8-cross-base_8.2.0-11cross1 gcc-arm-linux-gnueabihf_4:8.2.0-2 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpgv_2.2.12-1 grep_3.3-1 groff-base_1.22.4-2 gzip_1.9-3 help2man_1.47.8 hostname_3.21 init-system-helpers_1.56+nmu1 intltool-debian_0.35.0+20060710.5 libacl1_2.2.52-3+b1 libapt-pkg5.0_1.8.0~rc2 libarchive-zip-perl_1.64-1 libasan5_8.2.0-17 libasan5-armhf-cross_8.2.0-11cross1 libatomic1_8.2.0-17 libatomic1-armhf-cross_8.2.0-11cross1 libattr1_1:2.4.47-2+b2 libaudit-common_1:2.8.4-2 libaudit1_1:2.8.4-2 libbinutils_2.31.1-12 libblas-dev_3.8.0-2 libblas3_3.8.0-2 libblkid1_2.33.1-0.1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libc-bin_2.28-6 libc-dev-bin_2.28-6 libc6_2.28-6 libc6-armhf-cross_2.28-4cross1 libc6-dev_2.28-6 libc6-dev-armhf-cross_2.28-4cross1 libcap-ng0_0.7.9-2 libcc1-0_8.2.0-17 libcom-err2_1.44.5-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000001-1 libcroco3_0.6.12-3 libdb5.3_5.3.28+dfsg1-0.3 libdebconfclient0_0.246 libdebian-dpkgcross-perl_2.6.15-2 libdpkg-perl_1.19.4 libelf1_0.175-2 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfdisk1_2.33.1-0.1 libffi6_3.2.1-9 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.1.0-1 libfile-which-perl_1.23-1 libgcc-8-dev_8.2.0-17 libgcc-8-dev-armhf-cross_8.2.0-11cross1 libgcc1_1:8.2.0-17 libgcc1-armhf-cross_1:8.2.0-11cross1 libgcrypt20_1.8.4-5 libgdbm-compat4_1.18.1-2 libgdbm6_1.18.1-2 libgfortran5_8.2.0-17 libglib2.0-0_2.58.3-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.6-2 libgomp1_8.2.0-17 libgomp1-armhf-cross_8.2.0-11cross1 libgpg-error0_1.35-1 libhogweed4_3.4.1-1 libicu63_63.1-6 libidn2-0_2.0.5-1 libio-string-perl_1.08-3 libisl19_0.20-2 libitm1_8.2.0-17 liblapack-dev_3.8.0-2 liblapack3_3.8.0-2 liblocale-gettext-perl_1.07-3+b4 liblsan0_8.2.0-17 liblz4-1_1.8.3-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.35-2 libmagic1_1:5.35-2 libmount1_2.33.1-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.2.0-17 libncurses6_6.1+20181013-1 libncursesw6_6.1+20181013-1 libnettle6_3.4.1-1 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-4 libpam-modules-bin_1.1.8-4 libpam-runtime_1.1.8-4 libpam0g_1.1.8-4 libpcre16-3_2:8.39-11 libpcre3_2:8.39-11 libpcre3-dev_2:8.39-11 libpcre32-3_2:8.39-11 libpcrecpp0v5_2:8.39-11 libperl5.28_5.28.1-4 libpipeline1_1.5.1-1 libquadmath0_8.2.0-17 libseccomp2_2.3.3-3 libselinux1_2.8-1+b1 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.33.1-0.1 libss2_1.44.5-1 libstdc++-8-dev_8.2.0-17 libstdc++-8-dev-armhf-cross_8.2.0-11cross1 libstdc++6_8.2.0-17 libstdc++6-armhf-cross_8.2.0-11cross1 libsystemd0_240-5 libtasn1-6_4.13-3 libtinfo6_6.1+20181013-1 libtmglib-dev_3.8.0-2 libtmglib3_3.8.0-2 libtool_2.4.6-9 libtsan0_8.2.0-17 libubsan1_8.2.0-17 libubsan1-armhf-cross_8.2.0-11cross1 libuchardet0_0.0.6-3 libudev1_240-5 libunistring2_0.9.10-1 libuuid1_2.33.1-0.1 libxml-libxml-perl_2.0133+dfsg-1 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.00+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.4+dfsg1-7+b3 libyaml-perl_1.27-1 libzstd1_1.3.8+dfsg-3 linux-libc-dev_4.19.16-1 linux-libc-dev-armhf-cross_4.19.13-1cross1 login_1:4.5-1.1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-1 mawk_1.3.3-17+b3 mount_2.33.1-0.1 ncurses-base_6.1+20181013-1 ncurses-bin_6.1+20181013-1 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.28.1-4 perl-base_5.28.1-4 perl-modules-5.28_5.28.1-4 po-debconf_1.0.21 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-essential-dummy_0.invalid.0 sbuild-build-depends-phast-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.93-6 tar_1.30+dfsg-5 tzdata_2018i-1 ucf_3.0038+nmu1 util-linux_2.33.1-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Fri Oct 19 07:15:09 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./phast_1.5+dfsg-1.dsc dpkg-source: info: extracting phast in /<>/phast-1.5+dfsg dpkg-source: info: unpacking phast_1.5+dfsg.orig.tar.xz dpkg-source: info: unpacking phast_1.5+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying clapack.patch dpkg-source: info: applying do_not_install_to_opt.patch dpkg-source: info: applying use_debian_packaged_libpcre.patch dpkg-source: info: applying use_debian_packaged_help2man.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying fix_test_makefile.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.armhf DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=POSIX 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-8b9dca38-a479-49a8-8ada-dc4b55c6aab8 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package phast dpkg-buildpackage: info: source version 1.5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type arm-linux-gnueabihf 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 armhf fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>/phast-1.5+dfsg' dh_auto_clean cd src && make clean make[2]: Entering directory '/<>/phast-1.5+dfsg/src' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/lib' for dir in base msa feature hmm phylo phylo_hmm motif; do cd /<>/phast-1.5+dfsg/src/lib/$dir && make clean ; done make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/base' rm -f *.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/base' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/msa' rm -f *.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/msa' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/feature' rm -f *.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/feature' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/hmm' rm -f *.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/hmm' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/phylo' rm -f *.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/phylo' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/phylo_hmm' rm -f *.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/phylo_hmm' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/motif' rm -f *.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/motif' rm -f /<>/phast-1.5+dfsg/src/lib/../../lib/* make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/lib' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/dless' rm -f *.o dless.help dlessP.help /<>/phast-1.5+dfsg/src/dless/../../bin/dless /<>/phast-1.5+dfsg/src/dless/../../bin/dlessP make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/dless' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/exoniphy' rm -f *.o *.help /<>/phast-1.5+dfsg/src/exoniphy/../../bin/exoniphy make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/exoniphy' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phastCons' rm -f *.o /<>/phast-1.5+dfsg/src/phastCons/../../bin/phastCons phastCons.help make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phastCons' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phastOdds' rm -f *.o *.help /<>/phast-1.5+dfsg/src/phastOdds/../../bin/phastOdds make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phastOdds' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phastMotif' rm -f *.o /<>/phast-1.5+dfsg/src/phastMotif/../../bin/phastMotif make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phastMotif' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phyloFit' rm -f *.o /<>/phast-1.5+dfsg/src/phyloFit/../../bin/phyloFit phyloFit.help make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phyloFit' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phyloBoot' rm -f *.o *.help /<>/phast-1.5+dfsg/src/phyloBoot/../../bin/phyloBoot make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phyloBoot' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phyloP' rm -f *.o /<>/phast-1.5+dfsg/src/phyloP/../../bin/phyloP phyloP.help make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phyloP' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/prequel' rm -f *.o /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsDecode /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsEncode /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsScoreMatrix /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsTrain /<>/phast-1.5+dfsg/src/prequel/../../bin/prequel pbsTrain.help pbsDecode.help pbsEncode.help prequel.help pbsScoreMatrix.help make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/prequel' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/util' rm -f *.o *.help /<>/phast-1.5+dfsg/src/util/../../bin/hmm_train /<>/phast-1.5+dfsg/src/util/../../bin/chooseLines /<>/phast-1.5+dfsg/src/util/../../bin/modFreqs /<>/phast-1.5+dfsg/src/util/../../bin/indelHistory /<>/phast-1.5+dfsg/src/util/../../bin/clean_genes /<>/phast-1.5+dfsg/src/util/../../bin/treeGen /<>/phast-1.5+dfsg/src/util/../../bin/base_evolve /<>/phast-1.5+dfsg/src/util/../../bin/phast /<>/phast-1.5+dfsg/src/util/../../bin/tree_doctor /<>/phast-1.5+dfsg/src/util/../../bin/msa_diff /<>/phast-1.5+dfsg/src/util/../../bin/indelFit /<>/phast-1.5+dfsg/src/util/../../bin/hmm_tweak /<>/phast-1.5+dfsg/src/util/../../bin/all_dists /<>/phast-1.5+dfsg/src/util/../../bin/stringiphy /<>/phast-1.5+dfsg/src/util/../../bin/convert_coords /<>/phast-1.5+dfsg/src/util/../../bin/hmm_view /<>/phast-1.5+dfsg/src/util/../../bin/consEntropy /<>/phast-1.5+dfsg/src/util/../../bin/maf_parse /<>/phast-1.5+dfsg/src/util/../../bin/msa_split /<>/phast-1.5+dfsg/src/util/../../bin/eval_predictions /<>/phast-1.5+dfsg/src/util/../../bin/display_rate_matrix /<>/phast-1.5+dfsg/src/util/../../bin/draw_tree /<>/phast-1.5+dfsg/src/util/../../bin/makeHKY /<>/phast-1.5+dfsg/src/util/../../bin/msa_view /<>/phast-1.5+dfsg/src/util/../../bin/phastBias /<>/phast-1.5+dfsg/src/util/../../bin/refeature make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/util' rm -rf ../bin ../lib ../doc make[2]: Leaving directory '/<>/phast-1.5+dfsg/src' make[1]: Leaving directory '/<>/phast-1.5+dfsg' dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a dh_auto_build -a make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=arm-linux-gnueabihf-pkg-config CXX=arm-linux-gnueabihf-g\+\+ CC=arm-linux-gnueabihf-gcc make[1]: Entering directory '/<>/phast-1.5+dfsg' Type "make package" to create a tarball reflecting the current state of the CVS tree. (cd src; make DESTDIR= CLAPACKPATH=/usr/lib ) make[2]: Entering directory '/<>/phast-1.5+dfsg/src' mkdir -p ../bin ../lib for dir in lib dless exoniphy phastCons phastOdds phastMotif phyloFit phyloBoot phyloP prequel util ; do cd /<>/phast-1.5+dfsg/src/$dir && make ; done make[3]: Entering directory '/<>/phast-1.5+dfsg/src/lib' for dir in base msa feature hmm phylo phylo_hmm motif; do cd /<>/phast-1.5+dfsg/src/lib/$dir && make ; done make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/base' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c complex_matrix.c -o complex_matrix.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c memory_handler.c -o memory_handler.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c eigen.c -o eigen.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c lists.c -o lists.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c prob_vector.c -o prob_vector.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c complex_vector.c -o complex_vector.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c numerical_opt.c -o numerical_opt.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c misc.c -o misc.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c markov_matrix.c -o markov_matrix.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c vector.c -o vector.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c stringsplus.c -o stringsplus.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c list_of_lists.c -o list_of_lists.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c hashtable.c -o hashtable.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c matrix.c -o matrix.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/base/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/base/../../..\" -fno-strict-aliasing -c prob_matrix.c -o prob_matrix.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar: creating /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o ar rs /<>/phast-1.5+dfsg/src/lib/base/../../../lib/libphast.a complex_matrix.o memory_handler.o eigen.o lists.o prob_vector.o complex_vector.o numerical_opt.o misc.o markov_matrix.o vector.o stringsplus.o list_of_lists.o hashtable.o matrix.o prob_matrix.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/base' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/msa' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/msa/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/msa/../../..\" -fno-strict-aliasing -c sufficient_stats.c -o sufficient_stats.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition sufficient_stats.c: In function 'ss_from_msas': sufficient_stats.c:140:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation] else ^~~~ sufficient_stats.c:142:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else' max_tuples = pow_bounded(strlen(msa->alphabet) + (int)strlen(msa->missing) + 1, ^~~~~~~~~~ arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/msa/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/msa/../../..\" -fno-strict-aliasing -c maf.c -o maf.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition maf.c: In function 'maf_read_cats_subset': maf.c:29:41: warning: variable 'block_no' set but not used [-Wunused-but-set-variable] int i, start_idx, length, max_tuples, block_no, ^~~~~~~~ arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/msa/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/msa/../../..\" -fno-strict-aliasing -c maf_block.c -o maf_block.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/msa/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/msa/../../..\" -fno-strict-aliasing -c local_alignment.c -o local_alignment.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/msa/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/msa/../../..\" -fno-strict-aliasing -c msa.c -o msa.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition msa.c: In function 'msa_read_fasta': msa.c:257:40: warning: variable 'line_no' set but not used [-Wunused-but-set-variable] int maxlen, i, nseqs, j, do_toupper, line_no; ^~~~~~~ arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/msa/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/msa/../../..\" -fno-strict-aliasing -c multi_msa.c -o multi_msa.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition ar rs /<>/phast-1.5+dfsg/src/lib/msa/../../../lib/libphast.a sufficient_stats.o maf.o maf_block.o local_alignment.o msa.o multi_msa.o ar rs /<>/phast-1.5+dfsg/src/lib/msa/../../../lib/libphast.a sufficient_stats.o maf.o maf_block.o local_alignment.o msa.o multi_msa.o ar rs /<>/phast-1.5+dfsg/src/lib/msa/../../../lib/libphast.a sufficient_stats.o maf.o maf_block.o local_alignment.o msa.o multi_msa.o ar rs /<>/phast-1.5+dfsg/src/lib/msa/../../../lib/libphast.a sufficient_stats.o maf.o maf_block.o local_alignment.o msa.o multi_msa.o ar rs /<>/phast-1.5+dfsg/src/lib/msa/../../../lib/libphast.a sufficient_stats.o maf.o maf_block.o local_alignment.o msa.o multi_msa.o ar rs /<>/phast-1.5+dfsg/src/lib/msa/../../../lib/libphast.a sufficient_stats.o maf.o maf_block.o local_alignment.o msa.o multi_msa.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/msa' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/feature' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/feature/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/feature/../../..\" -fno-strict-aliasing -c bed.c -o bed.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/feature/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/feature/../../..\" -fno-strict-aliasing -c wig.c -o wig.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/feature/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/feature/../../..\" -fno-strict-aliasing -c genepred.c -o genepred.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/feature/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/feature/../../..\" -fno-strict-aliasing -c category_map.c -o category_map.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/feature/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/feature/../../..\" -fno-strict-aliasing -c gff.c -o gff.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition ar rs /<>/phast-1.5+dfsg/src/lib/feature/../../../lib/libphast.a bed.o wig.o genepred.o category_map.o gff.o ar rs /<>/phast-1.5+dfsg/src/lib/feature/../../../lib/libphast.a bed.o wig.o genepred.o category_map.o gff.o ar rs /<>/phast-1.5+dfsg/src/lib/feature/../../../lib/libphast.a bed.o wig.o genepred.o category_map.o gff.o ar rs /<>/phast-1.5+dfsg/src/lib/feature/../../../lib/libphast.a bed.o wig.o genepred.o category_map.o gff.o ar rs /<>/phast-1.5+dfsg/src/lib/feature/../../../lib/libphast.a bed.o wig.o genepred.o category_map.o gff.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/feature' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/hmm' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/hmm/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/hmm/../../..\" -fno-strict-aliasing -c hmm.c -o hmm.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/hmm/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/hmm/../../..\" -fno-strict-aliasing -c em.c -o em.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition ar rs /<>/phast-1.5+dfsg/src/lib/hmm/../../../lib/libphast.a hmm.o em.o ar rs /<>/phast-1.5+dfsg/src/lib/hmm/../../../lib/libphast.a hmm.o em.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/hmm' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/phylo' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c dgamma.c -o dgamma.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c tree_model.c -o tree_model.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c indel_history.c -o indel_history.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c phylo_fit.c -o phylo_fit.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c fit_column.c -o fit_column.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c subst_mods.c -o subst_mods.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c fit_feature.c -o fit_feature.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c tree_likelihoods.c -o tree_likelihoods.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c phast_cons.c -o phast_cons.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c indel_mod.c -o indel_mod.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c phylo_p.c -o phylo_p.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c phylo_p_print.c -o phylo_p_print.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c trees.c -o trees.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c subst_distrib.c -o subst_distrib.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c fit_em.c -o fit_em.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo/../../..\" -fno-strict-aliasing -c bgc_hmm.c -o bgc_hmm.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition bgc_hmm.c: In function 'bgcHmm': bgc_hmm.c:241:15: warning: passing argument 1 to restrict-qualified parameter aliases with argument 3 [-Wrestrict] sprintf(warning_str, "%s, %s", warning_str, ((String*)lst_get_ptr(pruned_names, j))->chars); ^~~~~~~~~~~ ~~~~~~~~~~~ bgc_hmm.c:242:13: warning: passing argument 1 to restrict-qualified parameter aliases with argument 3 [-Wrestrict] sprintf(warning_str, "%s)\n", warning_str); ^~~~~~~~~~~ ~~~~~~~~~~~ bgc_hmm.c:241:31: warning: ', ' directive writing 2 bytes into a region of size between 1 and 10000 [-Wformat-overflow=] sprintf(warning_str, "%s, %s", warning_str, ((String*)lst_get_ptr(pruned_names, j))->chars); ^~ bgc_hmm.c:241:7: note: 'sprintf' output 3 or more bytes (assuming 10002) into a destination of size 10000 sprintf(warning_str, "%s, %s", warning_str, ((String*)lst_get_ptr(pruned_names, j))->chars); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bgc_hmm.c:242:29: warning: ') ' directive writing 2 bytes into a region of size between 1 and 10000 [-Wformat-overflow=] sprintf(warning_str, "%s)\n", warning_str); ^~~ bgc_hmm.c:242:5: note: 'sprintf' output between 3 and 10002 bytes into a destination of size 10000 sprintf(warning_str, "%s)\n", warning_str); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo/../../../lib/libphast.a dgamma.o tree_model.o indel_history.o phylo_fit.o fit_column.o subst_mods.o fit_feature.o tree_likelihoods.o phast_cons.o indel_mod.o phylo_p.o phylo_p_print.o trees.o subst_distrib.o fit_em.o bgc_hmm.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/phylo' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/phylo_hmm' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo_hmm/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo_hmm/../../..\" -fno-strict-aliasing -c phylo_hmm.c -o phylo_hmm.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/phylo_hmm/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/phylo_hmm/../../..\" -fno-strict-aliasing -c gap_patterns.c -o gap_patterns.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition ar rs /<>/phast-1.5+dfsg/src/lib/phylo_hmm/../../../lib/libphast.a phylo_hmm.o gap_patterns.o ar rs /<>/phast-1.5+dfsg/src/lib/phylo_hmm/../../../lib/libphast.a phylo_hmm.o gap_patterns.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/phylo_hmm' make[4]: Entering directory '/<>/phast-1.5+dfsg/src/lib/motif' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/motif/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/motif/../../..\" -fno-strict-aliasing -c tfbs.c -o tfbs.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition tfbs.c: In function 'ms_read': tfbs.c:219:32: warning: variable 'line_no' set but not used [-Wunused-but-set-variable] int i, nseqs, j, do_toupper, line_no; ^~~~~~~ arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/../..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/lib/motif/../../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/lib/motif/../../..\" -fno-strict-aliasing -c motif.c -o motif.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition ar rs /<>/phast-1.5+dfsg/src/lib/motif/../../../lib/libphast.a tfbs.o motif.o ar rs /<>/phast-1.5+dfsg/src/lib/motif/../../../lib/libphast.a tfbs.o motif.o make[4]: Leaving directory '/<>/phast-1.5+dfsg/src/lib/motif' make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/lib' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/dless' ../munge-help.sh dless.help_src > dless.help ../munge-help.sh dlessP.help_src > dlessP.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/dless/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/dless/../..\" -fno-strict-aliasing -c dless.c -o dless.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/dless/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/dless/../..\" -fno-strict-aliasing -c bd_phylo_hmm.c -o bd_phylo_hmm.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/dless/../../lib -o /<>/phast-1.5+dfsg/src/dless/../../bin/dless dless.o bd_phylo_hmm.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/dless/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/dless/../..\" -fno-strict-aliasing -c dlessP.c -o dlessP.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/dless/../../lib -o /<>/phast-1.5+dfsg/src/dless/../../bin/dlessP dlessP.o bd_phylo_hmm.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/dless' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/exoniphy' ../munge-help.sh exoniphy.help_src > exoniphy.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/exoniphy/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/exoniphy/../..\" -fno-strict-aliasing -c exoniphy.c -o exoniphy.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/exoniphy/../../lib -o /<>/phast-1.5+dfsg/src/exoniphy/../../bin/exoniphy exoniphy.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/exoniphy' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phastCons' ../munge-help.sh phastCons.help_src > phastCons.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/phastCons/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/phastCons/../..\" -fno-strict-aliasing -c phastCons.c -o phastCons.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/phastCons/../../lib -o /<>/phast-1.5+dfsg/src/phastCons/../../bin/phastCons phastCons.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phastCons' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phastOdds' ../munge-help.sh phastOdds.help_src > phastOdds.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/phastOdds/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/phastOdds/../..\" -fno-strict-aliasing -c phastOdds.c -o phastOdds.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/phastOdds/../../lib -o /<>/phast-1.5+dfsg/src/phastOdds/../../bin/phastOdds phastOdds.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phastOdds' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phastMotif' arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/phastMotif/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/phastMotif/../..\" -fno-strict-aliasing -c phastMotif.c -o phastMotif.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition phastMotif.c: In function 'main': phastMotif.c:131:13: warning: variable 'separate_backgd' set but not used [-Wunused-but-set-variable] int i, j, separate_backgd = 0, ^~~~~~~~~~~~~~~ arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/phastMotif/../../lib -o /<>/phast-1.5+dfsg/src/phastMotif/../../bin/phastMotif phastMotif.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phastMotif' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phyloFit' ../munge-help.sh phyloFit.help_src > phyloFit.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/phyloFit/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/phyloFit/../..\" -fno-strict-aliasing -c phyloFit.c -o phyloFit.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/phyloFit/../../lib -o /<>/phast-1.5+dfsg/src/phyloFit/../../bin/phyloFit phyloFit.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phyloFit' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phyloBoot' ../munge-help.sh phyloBoot.help_src > phyloBoot.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/phyloBoot/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/phyloBoot/../..\" -fno-strict-aliasing -c phyloBoot.c -o phyloBoot.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/phyloBoot/../../lib -o /<>/phast-1.5+dfsg/src/phyloBoot/../../bin/phyloBoot phyloBoot.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phyloBoot' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/phyloP' ../munge-help.sh phyloP.help_src > phyloP.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/phyloP/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/phyloP/../..\" -fno-strict-aliasing -c phyloP.c -o phyloP.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/phyloP/../../lib -o /<>/phast-1.5+dfsg/src/phyloP/../../bin/phyloP phyloP.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/phyloP' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/prequel' ../munge-help.sh pbsTrain.help_src > pbsTrain.help ../munge-help.sh pbsDecode.help_src > pbsDecode.help ../munge-help.sh pbsEncode.help_src > pbsEncode.help ../munge-help.sh prequel.help_src > prequel.help ../munge-help.sh pbsScoreMatrix.help_src > pbsScoreMatrix.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/prequel/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/prequel/../..\" -fno-strict-aliasing -c pbsDecode.c -o pbsDecode.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/prequel/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/prequel/../..\" -fno-strict-aliasing -c simplex_grid.c -o simplex_grid.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/prequel/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/prequel/../..\" -fno-strict-aliasing -c pbs_code.c -o pbs_code.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/prequel/../../lib -o /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsDecode pbsDecode.o simplex_grid.o pbs_code.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/prequel/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/prequel/../..\" -fno-strict-aliasing -c pbsEncode.c -o pbsEncode.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/prequel/../../lib -o /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsEncode pbsEncode.o simplex_grid.o pbs_code.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/prequel/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/prequel/../..\" -fno-strict-aliasing -c pbsScoreMatrix.c -o pbsScoreMatrix.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/prequel/../../lib -o /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsScoreMatrix pbsScoreMatrix.o simplex_grid.o pbs_code.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/prequel/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/prequel/../..\" -fno-strict-aliasing -c pbsTrain.c -o pbsTrain.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/prequel/../../lib -o /<>/phast-1.5+dfsg/src/prequel/../../bin/pbsTrain pbsTrain.o simplex_grid.o pbs_code.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/prequel/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/prequel/../..\" -fno-strict-aliasing -c prequel.c -o prequel.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/prequel/../../lib -o /<>/phast-1.5+dfsg/src/prequel/../../bin/prequel prequel.o simplex_grid.o pbs_code.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/prequel' make[3]: Entering directory '/<>/phast-1.5+dfsg/src/util' ../munge-help.sh phastBias.help_src > phastBias.help ../munge-help.sh modFreqs.help_src > modFreqs.help ../munge-help.sh indelHistory.help_src > indelHistory.help ../munge-help.sh clean_genes.help_src > clean_genes.help ../munge-help.sh treeGen.help_src > treeGen.help ../munge-help.sh base_evolve.help_src > base_evolve.help ../munge-help.sh phast.help_src > phast.help ../munge-help.sh msa_diff.help_src > msa_diff.help ../munge-help.sh makeHKY.help_src > makeHKY.help ../munge-help.sh indelFit.help_src > indelFit.help ../munge-help.sh consEntropy.help_src > consEntropy.help arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c hmm_train.c -o hmm_train.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/hmm_train hmm_train.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c chooseLines.c -o chooseLines.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/chooseLines chooseLines.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c modFreqs.c -o modFreqs.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/modFreqs modFreqs.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c indelHistory.c -o indelHistory.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/indelHistory indelHistory.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c clean_genes.c -o clean_genes.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/clean_genes clean_genes.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c treeGen.c -o treeGen.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/treeGen treeGen.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c base_evolve.c -o base_evolve.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/base_evolve base_evolve.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c phast.c -o phast.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/phast phast.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c tree_doctor.c -o tree_doctor.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/tree_doctor tree_doctor.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c msa_diff.c -o msa_diff.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/msa_diff msa_diff.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c indelFit.c -o indelFit.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/indelFit indelFit.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c hmm_tweak.c -o hmm_tweak.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/hmm_tweak hmm_tweak.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c all_dists.c -o all_dists.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/all_dists all_dists.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c stringiphy.c -o stringiphy.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/stringiphy stringiphy.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c convert_coords.c -o convert_coords.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/convert_coords convert_coords.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c hmm_view.c -o hmm_view.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/hmm_view hmm_view.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c consEntropy.c -o consEntropy.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/consEntropy consEntropy.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c maf_parse.c -o maf_parse.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/maf_parse maf_parse.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c msa_split.c -o msa_split.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/msa_split msa_split.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c eval_predictions.c -o eval_predictions.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/eval_predictions eval_predictions.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c display_rate_matrix.c -o display_rate_matrix.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition display_rate_matrix.c: In function 'do_context_dependent_ti_tv': display_rate_matrix.c:204:8: warning: variable 'tuple_i' set but not used [-Wunused-but-set-variable] char tuple_i[mod->order+2], tuple_j[mod->order+2]; ^~~~~~~ arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/display_rate_matrix display_rate_matrix.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c draw_tree.c -o draw_tree.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/draw_tree draw_tree.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c makeHKY.c -o makeHKY.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/makeHKY makeHKY.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c msa_view.c -o msa_view.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/msa_view msa_view.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c phastBias.c -o phastBias.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/phastBias phastBias.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<>/phast-1.5+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -I/<>/phast-1.5+dfsg/src/../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/..\" -fno-strict-aliasing -O3 -Wall -I/<>/phast-1.5+dfsg/src/util/../../include -DPHAST_VERSION=\"v1.4\" -DPHAST_HOME=\"/<>/phast-1.5+dfsg/src/util/../..\" -fno-strict-aliasing -c refeature.c -o refeature.o : warning: "PHAST_HOME" redefined : note: this is the location of the previous definition arm-linux-gnueabihf-gcc -L/<>/phast-1.5+dfsg/src/util/../../lib -o /<>/phast-1.5+dfsg/src/util/../../bin/refeature refeature.o -lphast -llapack -ltmglib -lblas -lc -lm -lpcre -Wl,-z,relro -Wl,-z,now make[3]: Leaving directory '/<>/phast-1.5+dfsg/src/util' mkdir -p ../doc/man/ Generating man pages... ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/all_dists: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/base_evolve: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/chooseLines: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/clean_genes: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/consEntropy: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/convert_coords: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/display_rate_matrix: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/dless: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/dlessP: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/draw_tree: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/eval_predictions: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/exoniphy: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/hmm_train: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/hmm_tweak: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/hmm_view: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/indelFit: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/indelHistory: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/maf_parse: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/makeHKY: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/modFreqs: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/msa_diff: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/msa_split: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/msa_view: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/pbsDecode: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/pbsEncode: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/pbsScoreMatrix: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/pbsTrain: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phast: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phastBias: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phastCons: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phastMotif: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phastOdds: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phyloBoot: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phyloFit: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/phyloP: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/prequel: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/refeature: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/stringiphy: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/treeGen: Exec format error ../debian/help2man_wrapper: 1: ../debian/help2man_wrapper: ../bin/tree_doctor: Exec format error Done. make[2]: Leaving directory '/<>/phast-1.5+dfsg/src' make[1]: Leaving directory '/<>/phast-1.5+dfsg' 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=/<>/phast-1.5\+dfsg/debian/phast AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/phast-1.5+dfsg' (cd src; make install DESTDIR=/<>/phast-1.5+dfsg/debian/phast ) make[2]: Entering directory '/<>/phast-1.5+dfsg/src' mkdir -p /<>/phast-1.5+dfsg/debian/phast/usr/bin/ mkdir -p /<>/phast-1.5+dfsg/debian/phast/usr/share/phast/data/ mkdir -p /<>/phast-1.5+dfsg/debian/phast/usr/share/man/man1/ cp ../bin/* /<>/phast-1.5+dfsg/debian/phast/usr/bin/ cp -R ../data/* /<>/phast-1.5+dfsg/debian/phast/usr/share/phast/data/ cp -R ../doc/man/* /<>/phast-1.5+dfsg/debian/phast/usr/share/man/man1/ make[2]: Leaving directory '/<>/phast-1.5+dfsg/src' make[1]: Leaving directory '/<>/phast-1.5+dfsg' dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/phast/usr/bin/phastOdds debian/phast/usr/bin/pbsEncode debian/phast/usr/bin/phastMotif debian/phast/usr/bin/indelHistory debian/phast/usr/bin/phastBias debian/phast/usr/bin/pbsScoreMatrix debian/phast/usr/bin/hmm_tweak debian/phast/usr/bin/msa_diff debian/phast/usr/bin/phyloP debian/phast/usr/bin/msa_view debian/phast/usr/bin/stringiphy debian/phast/usr/bin/treeGen debian/phast/usr/bin/prequel debian/phast/usr/bin/phyloBoot debian/phast/usr/bin/maf_parse debian/phast/usr/bin/dless debian/phast/usr/bin/pbsDecode debian/phast/usr/bin/refeature debian/phast/usr/bin/makeHKY debian/phast/usr/bin/indelFit debian/phast/usr/bin/hmm_train debian/phast/usr/bin/base_evolve debian/phast/usr/bin/display_rate_matrix debian/phast/usr/bin/hmm_view debian/phast/usr/bin/dlessP debian/phast/usr/bin/msa_split debian/phast/usr/bin/pbsTrain debian/phast/usr/bin/consEntropy debian/phast/usr/bin/modFreqs debian/phast/usr/bin/exoniphy debian/phast/usr/bin/phast debian/phast/usr/bin/chooseLines debian/phast/usr/bin/convert_coords debian/phast/usr/bin/all_dists debian/phast/usr/bin/tree_doctor debian/phast/usr/bin/phyloFit debian/phast/usr/bin/draw_tree debian/phast/usr/bin/clean_genes debian/phast/usr/bin/phastCons debian/phast/usr/bin/eval_predictions were not linked against libblas.so.3 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/phast/usr/bin/phastOdds debian/phast/usr/bin/pbsEncode debian/phast/usr/bin/phastMotif debian/phast/usr/bin/indelHistory debian/phast/usr/bin/phastBias debian/phast/usr/bin/pbsScoreMatrix debian/phast/usr/bin/hmm_tweak debian/phast/usr/bin/msa_diff debian/phast/usr/bin/phyloP debian/phast/usr/bin/msa_view debian/phast/usr/bin/stringiphy debian/phast/usr/bin/treeGen debian/phast/usr/bin/prequel debian/phast/usr/bin/phyloBoot debian/phast/usr/bin/maf_parse debian/phast/usr/bin/dless debian/phast/usr/bin/pbsDecode debian/phast/usr/bin/refeature debian/phast/usr/bin/makeHKY debian/phast/usr/bin/indelFit debian/phast/usr/bin/hmm_train debian/phast/usr/bin/base_evolve debian/phast/usr/bin/display_rate_matrix debian/phast/usr/bin/hmm_view debian/phast/usr/bin/dlessP debian/phast/usr/bin/msa_split debian/phast/usr/bin/pbsTrain debian/phast/usr/bin/consEntropy debian/phast/usr/bin/modFreqs debian/phast/usr/bin/exoniphy debian/phast/usr/bin/phast debian/phast/usr/bin/chooseLines debian/phast/usr/bin/convert_coords debian/phast/usr/bin/all_dists debian/phast/usr/bin/tree_doctor debian/phast/usr/bin/phyloFit debian/phast/usr/bin/draw_tree debian/phast/usr/bin/clean_genes debian/phast/usr/bin/phastCons debian/phast/usr/bin/eval_predictions were not linked against libtmglib.so.3 (they use none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'phast' in '../phast_1.5+dfsg-1_armhf.deb'. dpkg-deb: building package 'phast-dbgsym' in '../phast-dbgsym_1.5+dfsg-1_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../phast_1.5+dfsg-1_armhf.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 2019-02-08T08:56:35Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/resolver-PgvEbI/apt_archive/sbuild-build-depends-lintian-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy sbuild-build-depends-lintian-dummy sbuild-build-depends-phast-dummy dpkg-scanpackages: info: Wrote 4 entries to output Packages file. Ign:1 copy:/<>/resolver-PgvEbI/apt_archive ./ InRelease Get:2 copy:/<>/resolver-PgvEbI/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-PgvEbI/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-PgvEbI/apt_archive ./ Sources [780 B] Get:5 copy:/<>/resolver-PgvEbI/apt_archive ./ Packages [853 B] Fetched 2596 B in 0s (150 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 libcgi-pm-perl libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblist-moreutils-perl libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl libreadline7 libsqlite3-0 libssl1.1 libstruct-dumb-perl libsub-name-perl libtext-levenshtein-perl libtimedate-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 libhtml-template-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 libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libauthen-sasl-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libcgi-pm-perl libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblist-moreutils-perl libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl libreadline7 libsqlite3-0 libssl1.1 libstruct-dumb-perl libsub-name-perl libtext-levenshtein-perl libtimedate-perl liburi-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:armhf t1utils 0 upgraded, 45 newly installed, 0 to remove and 0 not upgraded. Need to get 7661 kB of archives. After this operation, 20.5 MB of additional disk space will be used. Get:1 copy:/<>/resolver-PgvEbI/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [852 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 netbase all 5.5 [19.3 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 7.0-5 [70.6 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.62-1 [33.4 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.2-1 [49.4 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.12-1 [509 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.26.0+fossilbc891ac6b-2 [635 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.12-1 [862 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.34+b1 [71.2 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-3 [12.7 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-1 [89.9 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-3+b3 [105 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libcgi-pm-perl all 4.40-1 [222 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.21-1+b3 [13.6 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-accessor-perl all 0.51-1 [23.2 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.41-1+b1 [14.6 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libdigest-hmac-perl all 1.03+dfsg-2 [10.6 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3000-2 [42.2 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1a-1 [1527 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 perl-openssl-defaults amd64 3 [6782 B] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ssleay-perl amd64 1.85-2+b1 [308 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libio-socket-ssl-perl all 2.060-3 [207 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libmailtools-perl all 2.18-1 [88.5 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ip-perl all 1.26-2 [29.0 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-dns-perl all 1.19-1 [372 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1 [33.3 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-valid-perl all 1.202-1 [23.0 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002001-1 [36.9 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.25-4 [26.5 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.39-1 [74.5 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.09-1 [11.1 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.72-1 [262 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libio-pty-perl amd64 1:1.08-1.1+b5 [33.7 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-run-perl all 20180523.0-1 [101 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b4 [64.2 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libparse-debianchangelog-perl all 1.2.0-13 [59.5 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.76+repack-1 [33.1 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-2 [90.4 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-3 [62.3 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.6.0 [1193 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7661 kB in 0s (37.9 MB/s) Selecting previously unselected package netbase. (Reading database ... 17821 files and directories currently installed.) Preparing to unpack .../00-netbase_5.5_all.deb ... Unpacking netbase (5.5) ... Selecting previously unselected package readline-common. Preparing to unpack .../01-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package diffstat. Preparing to unpack .../02-diffstat_1.62-1_amd64.deb ... Unpacking diffstat (1.62-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../03-libassuan0_2.5.2-1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.2-1) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../04-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) ... Selecting previously unselected package gpgconf. Preparing to unpack .../05-gpgconf_2.2.12-1_amd64.deb ... Unpacking gpgconf (2.2.12-1) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../06-libsqlite3-0_3.26.0+fossilbc891ac6b-2_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.26.0+fossilbc891ac6b-2) ... Selecting previously unselected package gpg. Preparing to unpack .../07-gpg_2.2.12-1_amd64.deb ... Unpacking gpg (2.2.12-1) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../08-libapt-pkg-perl_0.1.34+b1_amd64.deb ... Unpacking libapt-pkg-perl (0.1.34+b1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../09-libhtml-tagset-perl_3.20-3_all.deb ... Unpacking libhtml-tagset-perl (3.20-3) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../10-liburi-perl_1.76-1_all.deb ... Unpacking liburi-perl (1.76-1) ... Selecting previously unselected package libhtml-parser-perl. Preparing to unpack .../11-libhtml-parser-perl_3.72-3+b3_amd64.deb ... Unpacking libhtml-parser-perl (3.72-3+b3) ... Selecting previously unselected package libcgi-pm-perl. Preparing to unpack .../12-libcgi-pm-perl_4.40-1_all.deb ... Unpacking libcgi-pm-perl (4.40-1) ... Selecting previously unselected package libsub-name-perl. Preparing to unpack .../13-libsub-name-perl_0.21-1+b3_amd64.deb ... Unpacking libsub-name-perl (0.21-1+b3) ... Selecting previously unselected package libclass-accessor-perl. Preparing to unpack .../14-libclass-accessor-perl_0.51-1_all.deb ... Unpacking libclass-accessor-perl (0.51-1) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../15-libclone-perl_0.41-1+b1_amd64.deb ... Unpacking libclone-perl (0.41-1+b1) ... Selecting previously unselected package libdigest-hmac-perl. Preparing to unpack .../16-libdigest-hmac-perl_1.03+dfsg-2_all.deb ... Unpacking libdigest-hmac-perl (1.03+dfsg-2) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../17-libtimedate-perl_2.3000-2_all.deb ... Unpacking libtimedate-perl (2.3000-2) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../18-libssl1.1_1.1.1a-1_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1a-1) ... Selecting previously unselected package perl-openssl-defaults:amd64. Preparing to unpack .../19-perl-openssl-defaults_3_amd64.deb ... Unpacking perl-openssl-defaults:amd64 (3) ... Selecting previously unselected package libnet-ssleay-perl. Preparing to unpack .../20-libnet-ssleay-perl_1.85-2+b1_amd64.deb ... Unpacking libnet-ssleay-perl (1.85-2+b1) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../21-libio-socket-ssl-perl_2.060-3_all.deb ... Unpacking libio-socket-ssl-perl (2.060-3) ... Selecting previously unselected package libnet-smtp-ssl-perl. Preparing to unpack .../22-libnet-smtp-ssl-perl_1.04-1_all.deb ... Unpacking libnet-smtp-ssl-perl (1.04-1) ... Selecting previously unselected package libmailtools-perl. Preparing to unpack .../23-libmailtools-perl_2.18-1_all.deb ... Unpacking libmailtools-perl (2.18-1) ... Selecting previously unselected package libnet-ip-perl. Preparing to unpack .../24-libnet-ip-perl_1.26-2_all.deb ... Unpacking libnet-ip-perl (1.26-2) ... Selecting previously unselected package libnet-dns-perl. Preparing to unpack .../25-libnet-dns-perl_1.19-1_all.deb ... Unpacking libnet-dns-perl (1.19-1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../26-libnet-domain-tld-perl_1.75-1_all.deb ... Unpacking libnet-domain-tld-perl (1.75-1) ... Selecting previously unselected package libemail-valid-perl. Preparing to unpack .../27-libemail-valid-perl_1.202-1_all.deb ... Unpacking libemail-valid-perl (1.202-1) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../28-libexporter-tiny-perl_1.002001-1_all.deb ... Unpacking libexporter-tiny-perl (1.002001-1) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../29-libipc-system-simple-perl_1.25-4_all.deb ... Unpacking libipc-system-simple-perl (1.25-4) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../30-libfile-basedir-perl_0.08-1_all.deb ... Unpacking libfile-basedir-perl (0.08-1) ... Selecting previously unselected package libfuture-perl. Preparing to unpack .../31-libfuture-perl_0.39-1_all.deb ... Unpacking libfuture-perl (0.39-1) ... Selecting previously unselected package libstruct-dumb-perl. Preparing to unpack .../32-libstruct-dumb-perl_0.09-1_all.deb ... Unpacking libstruct-dumb-perl (0.09-1) ... Selecting previously unselected package libio-async-perl. Preparing to unpack .../33-libio-async-perl_0.72-1_all.deb ... Unpacking libio-async-perl (0.72-1) ... Selecting previously unselected package libio-pty-perl. Preparing to unpack .../34-libio-pty-perl_1%3a1.08-1.1+b5_amd64.deb ... Unpacking libio-pty-perl (1:1.08-1.1+b5) ... Selecting previously unselected package libipc-run-perl. Preparing to unpack .../35-libipc-run-perl_20180523.0-1_all.deb ... Unpacking libipc-run-perl (20180523.0-1) ... Selecting previously unselected package liblist-moreutils-perl. Preparing to unpack .../36-liblist-moreutils-perl_0.416-1+b4_amd64.deb ... Unpacking liblist-moreutils-perl (0.416-1+b4) ... Selecting previously unselected package libparse-debianchangelog-perl. Preparing to unpack .../37-libparse-debianchangelog-perl_1.2.0-13_all.deb ... Unpacking libparse-debianchangelog-perl (1.2.0-13) ... Selecting previously unselected package libtext-levenshtein-perl. Preparing to unpack .../38-libtext-levenshtein-perl_0.13-1_all.deb ... Unpacking libtext-levenshtein-perl (0.13-1) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../39-libyaml-0-2_0.2.1-1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.1-1) ... Selecting previously unselected package libyaml-libyaml-perl. Preparing to unpack .../40-libyaml-libyaml-perl_0.76+repack-1_amd64.deb ... Unpacking libyaml-libyaml-perl (0.76+repack-1) ... Selecting previously unselected package patchutils. Preparing to unpack .../41-patchutils_0.3.4-2_amd64.deb ... Unpacking patchutils (0.3.4-2) ... Selecting previously unselected package t1utils. Preparing to unpack .../42-t1utils_1.41-3_amd64.deb ... Unpacking t1utils (1.41-3) ... Selecting previously unselected package lintian. Preparing to unpack .../43-lintian_2.6.0_all.deb ... Unpacking lintian (2.6.0) ... Selecting previously unselected package sbuild-build-depends-lintian-dummy:armhf. Preparing to unpack .../44-sbuild-build-depends-lintian-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Setting up libhtml-tagset-perl (3.20-3) ... Setting up libnet-domain-tld-perl (1.75-1) ... Setting up readline-common (7.0-5) ... Setting up libapt-pkg-perl (0.1.34+b1) ... Setting up libio-pty-perl (1:1.08-1.1+b5) ... Setting up libtext-levenshtein-perl (0.13-1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libnet-ip-perl (1.26-2) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libipc-system-simple-perl (1.25-4) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up libfuture-perl (0.39-1) ... Setting up libexporter-tiny-perl (1.002001-1) ... Setting up libstruct-dumb-perl (0.09-1) ... Setting up libyaml-0-2:amd64 (0.2.1-1) ... Setting up patchutils (0.3.4-2) ... Setting up liburi-perl (1.76-1) ... Setting up t1utils (1.41-3) ... Setting up libssl1.1:amd64 (1.1.1a-1) ... Setting up libhtml-parser-perl (3.72-3+b3) ... Setting up libipc-run-perl (20180523.0-1) ... Setting up libcgi-pm-perl (4.40-1) ... Setting up libsqlite3-0:amd64 (3.26.0+fossilbc891ac6b-2) ... Setting up libdigest-hmac-perl (1.03+dfsg-2) ... Setting up libio-async-perl (0.72-1) ... Setting up libclone-perl (0.41-1+b1) ... Setting up libsub-name-perl (0.21-1+b3) ... Setting up libyaml-libyaml-perl (0.76+repack-1) ... Setting up libassuan0:amd64 (2.5.2-1) ... Setting up diffstat (1.62-1) ... Setting up libclass-accessor-perl (0.51-1) ... Setting up netbase (5.5) ... Setting up liblist-moreutils-perl (0.416-1+b4) ... Setting up perl-openssl-defaults:amd64 (3) ... Setting up gpgconf (2.2.12-1) ... Setting up libnet-dns-perl (1.19-1) ... Setting up libparse-debianchangelog-perl (1.2.0-13) ... Setting up gpg (2.2.12-1) ... Setting up libnet-ssleay-perl (1.85-2+b1) ... Setting up libio-socket-ssl-perl (2.060-3) ... Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up libmailtools-perl (2.18-1) ... Setting up libemail-valid-perl (1.202-1) ... Setting up lintian (2.6.0) ... Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Processing triggers for man-db (2.8.5-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.28-6) ... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ phast_1.5+dfsg-1_armhf.changes: ------------------------------- Format: 1.8 Date: Fri, 19 Oct 2018 09:10:34 +0200 Source: phast Binary: phast phast-dbgsym Built-For-Profiles: cross nocheck Architecture: armhf Version: 1.5+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: phast - phylogenetic analysis with space/time models Changes: phast (1.5+dfsg-1) unstable; urgency=medium . * New upstream version * Fix homepage * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 * Run part or the test suite Checksums-Sha1: 81cfea90ee06e49eb073bf82e394199cf9f0831c 31140900 phast-dbgsym_1.5+dfsg-1_armhf.deb 71cd961031e28c58df6b9f988a5bc7355755df5c 4801 phast_1.5+dfsg-1_armhf.buildinfo 0459cd4aa0f505de2fa5935ade4f5df1420652f9 1231628 phast_1.5+dfsg-1_armhf.deb Checksums-Sha256: 626f20956cfbf5907e6bc11a918aa95a602891dbfff8ce0fd85fc9076260518d 31140900 phast-dbgsym_1.5+dfsg-1_armhf.deb ebfe42821d2397f4d703783cb9d5220a3f68b1ae76b825e4a63dce7654cb3810 4801 phast_1.5+dfsg-1_armhf.buildinfo dffbf2b71c1beb26d475efd561bebb9f99a4672c5da9d9840e62c58f833ddd36 1231628 phast_1.5+dfsg-1_armhf.deb Files: 6ade900ba1821b7b3c3e405302e5ebbc 31140900 debug optional phast-dbgsym_1.5+dfsg-1_armhf.deb c5d9778f0dc7f3ab9ae7dea32bd252b9 4801 science optional phast_1.5+dfsg-1_armhf.buildinfo 64bada2622bedd3ea233d13b2710b5ab 1231628 science optional phast_1.5+dfsg-1_armhf.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: phast Binary: phast Architecture: armhf Version: 1.5+dfsg-1 Checksums-Md5: 6ade900ba1821b7b3c3e405302e5ebbc 31140900 phast-dbgsym_1.5+dfsg-1_armhf.deb 64bada2622bedd3ea233d13b2710b5ab 1231628 phast_1.5+dfsg-1_armhf.deb Checksums-Sha1: 81cfea90ee06e49eb073bf82e394199cf9f0831c 31140900 phast-dbgsym_1.5+dfsg-1_armhf.deb 0459cd4aa0f505de2fa5935ade4f5df1420652f9 1231628 phast_1.5+dfsg-1_armhf.deb Checksums-Sha256: 626f20956cfbf5907e6bc11a918aa95a602891dbfff8ce0fd85fc9076260518d 31140900 phast-dbgsym_1.5+dfsg-1_armhf.deb dffbf2b71c1beb26d475efd561bebb9f99a4672c5da9d9840e62c58f833ddd36 1231628 phast_1.5+dfsg-1_armhf.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Fri, 08 Feb 2019 08:56:34 +0000 Build-Path: /<>/phast-1.5+dfsg 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 (= 10.1), base-passwd (= 3.5.45), bash (= 5.0-2), binutils (= 2.31.1-12), binutils-common (= 2.31.1-12), binutils-x86-64-linux-gnu (= 2.31.1-12), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.33.1-0.1), build-essential (= 12.5), bzip2 (= 1.0.6-9), coreutils (= 8.30-1), cpp (= 4:8.2.0-2), cpp-8 (= 8.2.0-17), dash (= 0.5.10.2-5), debconf (= 1.5.70), debhelper (= 12), debianutils (= 4.8.6.1), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.1.0-1), diffutils (= 1:3.6-1), dpkg (= 1.19.4), dpkg-dev (= 1.19.4), dwz (= 0.12-3), fdisk (= 2.33.1-0.1), file (= 1:5.35-2), findutils (= 4.6.0+git+20190105-2), g++ (= 4:8.2.0-2), g++-8 (= 8.2.0-17), gcc (= 4:8.2.0-2), gcc-8 (= 8.2.0-17), gcc-8-base (= 8.2.0-17), gettext (= 0.19.8.1-9), gettext-base (= 0.19.8.1-9), grep (= 3.3-1), groff-base (= 1.22.4-2), gzip (= 1.9-3), help2man (= 1.47.8), hostname (= 3.21), init-system-helpers (= 1.56+nmu1), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.52-3+b1), libarchive-zip-perl (= 1.64-1), libasan5 (= 8.2.0-17), libatomic1 (= 8.2.0-17), libattr1 (= 1:2.4.47-2+b2), libaudit-common (= 1:2.8.4-2), libaudit1 (= 1:2.8.4-2), libbinutils (= 2.31.1-12), libblas-dev (= 3.8.0-2), libblas3 (= 3.8.0-2), libblkid1 (= 2.33.1-0.1), libbsd0 (= 0.9.1-1), libbz2-1.0 (= 1.0.6-9), libc-bin (= 2.28-6), libc-dev-bin (= 2.28-6), libc6 (= 2.28-6), libc6-dev (= 2.28-6), libcap-ng0 (= 0.7.9-2), libcc1-0 (= 8.2.0-17), libcroco3 (= 0.6.12-3), libdb5.3 (= 5.3.28+dfsg1-0.3), libdebconfclient0 (= 0.246), libdpkg-perl (= 1.19.4), libelf1 (= 0.175-2), libfdisk1 (= 2.33.1-0.1), libffi6 (= 3.2.1-9), libfile-stripnondeterminism-perl (= 1.1.0-1), libgcc-8-dev (= 8.2.0-17), libgcc1 (= 1:8.2.0-17), libgcrypt20 (= 1.8.4-5), libgdbm-compat4 (= 1.18.1-2), libgdbm6 (= 1.18.1-2), libgfortran5 (= 8.2.0-17), libglib2.0-0 (= 2.58.3-1), libgmp10 (= 2:6.1.2+dfsg-4), libgomp1 (= 8.2.0-17), libgpg-error0 (= 1.35-1), libicu63 (= 63.1-6), libisl19 (= 0.20-2), libitm1 (= 8.2.0-17), liblapack-dev (= 3.8.0-2), liblapack3 (= 3.8.0-2), liblocale-gettext-perl (= 1.07-3+b4), liblsan0 (= 8.2.0-17), liblz4-1 (= 1.8.3-1), liblzma5 (= 5.2.4-1), libmagic-mgc (= 1:5.35-2), libmagic1 (= 1:5.35-2), libmount1 (= 2.33.1-0.1), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), libmpx2 (= 8.2.0-17), libncurses6 (= 6.1+20181013-1), libncursesw6 (= 6.1+20181013-1), libpam-modules (= 1.1.8-4), libpam-modules-bin (= 1.1.8-4), libpam-runtime (= 1.1.8-4), libpam0g (= 1.1.8-4), libpcre16-3 (= 2:8.39-11), libpcre3 (= 2:8.39-11), libpcre3-dev (= 2:8.39-11), libpcre32-3 (= 2:8.39-11), libpcrecpp0v5 (= 2:8.39-11), libperl5.28 (= 5.28.1-4), libpipeline1 (= 1.5.1-1), libquadmath0 (= 8.2.0-17), libseccomp2 (= 2.3.3-3), libselinux1 (= 2.8-1+b1), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.33.1-0.1), libstdc++-8-dev (= 8.2.0-17), libstdc++6 (= 8.2.0-17), libsystemd0 (= 240-5), libtinfo6 (= 6.1+20181013-1), libtmglib-dev (= 3.8.0-2), libtmglib3 (= 3.8.0-2), libtool (= 2.4.6-9), libtsan0 (= 8.2.0-17), libubsan1 (= 8.2.0-17), libuchardet0 (= 0.0.6-3), libudev1 (= 240-5), libunistring2 (= 0.9.10-1), libuuid1 (= 2.33.1-0.1), libxml2 (= 2.9.4+dfsg1-7+b3), linux-libc-dev (= 4.19.16-1), login (= 1:4.5-1.1), m4 (= 1.4.18-2), make (= 4.2.1-1.2), man-db (= 2.8.5-1), mawk (= 1.3.3-17+b3), ncurses-base (= 6.1+20181013-1), ncurses-bin (= 6.1+20181013-1), patch (= 2.7.6-3), perl (= 5.28.1-4), perl-base (= 5.28.1-4), perl-modules-5.28 (= 5.28.1-4), po-debconf (= 1.0.21), sed (= 4.7-1), sensible-utils (= 0.0.12), sysvinit-utils (= 2.93-6), tar (= 1.30+dfsg-5), util-linux (= 2.33.1-0.1), xz-utils (= 5.2.4-1), zlib1g (= 1:1.2.11.dfsg-1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="POSIX" SOURCE_DATE_EPOCH="1539933034" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ phast-dbgsym_1.5+dfsg-1_armhf.deb --------------------------------- new Debian package, version 2.0. size 31140900 bytes: control archive=2352 bytes. 1969 bytes, 12 lines control 4240 bytes, 40 lines md5sums Package: phast-dbgsym Source: phast Version: 1.5+dfsg-1 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 34143 Depends: phast (= 1.5+dfsg-1) Section: debug Priority: optional Description: debug symbols for phast Build-Ids: 0d14114c8508f47b557b351ecec6270ae1d30960 1898c3dd8fc5da9937e7bc3b19cc85375a7c7e12 286d7595029a8ea483b76e9474d4da3d26b0a61f 29faea4eeb18cb0ad22148bec9953f50483cf18e 3a25df7efc343bd79a198f71b3680513961540fc 3b402b38b135192b7580a8e293d5ad72de70d1ef 3d638d4d7da91f4572cc62ba963309caba55133c 44dc4a3c9c8975b003d305905659df7ffee3bccf 4516e5395e388f5d8ba366371b9e7529a91b0ea2 487a32482560f086371f004bb589ff2b751e8050 4e20d527f6e8840f77f9465950b3b63cd69008c1 4f4ec8baecc3846efa7efaaffab60c910e82e453 58ce0478b3d40e80024c9539c21ec94332d75534 5efd37c0b5eb7855bc9509405a21fde7964b2ae2 665eb9b11c3bbd3e0b036169876110695a53b18f 71caf0d7cc0aa5432f05702a85296a597f66c563 75cecd1b61f841e895ded3fb650ceb7ea21114fc 779ebbaed7a86a76be1f749f54bee7383ff69fd6 7e80651236b00c62ec95c152e3ac9fec29c90b7c 8a34fff691241f0f36a0db5eb0e0eddacc258565 9f7d831e627b0ca73d763cce01c42fb2a926ea2f a4be4d8978089955d0a5178cd0b5b2ab9bd27193 aae76a24b13dcc865af9d93272fd9eb02c0eea8b b196550e364978ffdf95efedd4d85227801b7d32 b4d9edf4d4cf3680377b4ae4350d0144491a44a9 b761ab19f2d4ca838e2cd503f5a147e47da2ac21 bc4a6c90616a0e734a1160eec41038a8801362b5 c8b2ed490b13c06c91959c35218c07d4084e8a7b ca91ee63554be0a9edb2c7522e683ef68c4697c6 cc0a99ebcf29a6e0c6fb42797550465295e465a9 d02f5c5a92c11ae0736eee5785f2985fff50f419 da96b3d64bdd2bd0105bdd9d877467de04a5597c db602ec9ed40575a95dc7d8748ce0a0c153e9451 dcb23ed6f3917c8da6b17870b2e34e7a5b69d745 f17776b042a57c81db618a2ce9a9455e70a3d458 f33fbe3105ee0356ef7e9d1a2b63f62eac63caa4 f60569020dd717768a2f5f04c87fe9fa3885371b f66f3f693c18e86e1e41fdbef788b44694e38749 f67a921957b79c52caff8c0ebc0057942aadd329 f785a3edc60ca1a9b500813014eb17a29b57290d drwxr-xr-x root/root 0 2018-10-19 07:10 ./ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/0d/ -rw-r--r-- root/root 879552 2018-10-19 07:10 ./usr/lib/debug/.build-id/0d/14114c8508f47b557b351ecec6270ae1d30960.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/18/ -rw-r--r-- root/root 1050256 2018-10-19 07:10 ./usr/lib/debug/.build-id/18/98c3dd8fc5da9937e7bc3b19cc85375a7c7e12.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/28/ -rw-r--r-- root/root 908872 2018-10-19 07:10 ./usr/lib/debug/.build-id/28/6d7595029a8ea483b76e9474d4da3d26b0a61f.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/29/ -rw-r--r-- root/root 1000872 2018-10-19 07:10 ./usr/lib/debug/.build-id/29/faea4eeb18cb0ad22148bec9953f50483cf18e.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/3a/ -rw-r--r-- root/root 880236 2018-10-19 07:10 ./usr/lib/debug/.build-id/3a/25df7efc343bd79a198f71b3680513961540fc.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/3b/ -rw-r--r-- root/root 883748 2018-10-19 07:10 ./usr/lib/debug/.build-id/3b/402b38b135192b7580a8e293d5ad72de70d1ef.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/3d/ -rw-r--r-- root/root 880912 2018-10-19 07:10 ./usr/lib/debug/.build-id/3d/638d4d7da91f4572cc62ba963309caba55133c.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/44/ -rw-r--r-- root/root 881176 2018-10-19 07:10 ./usr/lib/debug/.build-id/44/dc4a3c9c8975b003d305905659df7ffee3bccf.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/45/ -rw-r--r-- root/root 882408 2018-10-19 07:10 ./usr/lib/debug/.build-id/45/16e5395e388f5d8ba366371b9e7529a91b0ea2.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/48/ -rw-r--r-- root/root 880852 2018-10-19 07:10 ./usr/lib/debug/.build-id/48/7a32482560f086371f004bb589ff2b751e8050.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/4e/ -rw-r--r-- root/root 889308 2018-10-19 07:10 ./usr/lib/debug/.build-id/4e/20d527f6e8840f77f9465950b3b63cd69008c1.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/4f/ -rw-r--r-- root/root 881788 2018-10-19 07:10 ./usr/lib/debug/.build-id/4f/4ec8baecc3846efa7efaaffab60c910e82e453.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/58/ -rw-r--r-- root/root 881160 2018-10-19 07:10 ./usr/lib/debug/.build-id/58/ce0478b3d40e80024c9539c21ec94332d75534.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/5e/ -rw-r--r-- root/root 879668 2018-10-19 07:10 ./usr/lib/debug/.build-id/5e/fd37c0b5eb7855bc9509405a21fde7964b2ae2.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/66/ -rw-r--r-- root/root 880692 2018-10-19 07:10 ./usr/lib/debug/.build-id/66/5eb9b11c3bbd3e0b036169876110695a53b18f.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/71/ -rw-r--r-- root/root 885116 2018-10-19 07:10 ./usr/lib/debug/.build-id/71/caf0d7cc0aa5432f05702a85296a597f66c563.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/75/ -rw-r--r-- root/root 880392 2018-10-19 07:10 ./usr/lib/debug/.build-id/75/cecd1b61f841e895ded3fb650ceb7ea21114fc.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/77/ -rw-r--r-- root/root 885608 2018-10-19 07:10 ./usr/lib/debug/.build-id/77/9ebbaed7a86a76be1f749f54bee7383ff69fd6.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/7e/ -rw-r--r-- root/root 882652 2018-10-19 07:10 ./usr/lib/debug/.build-id/7e/80651236b00c62ec95c152e3ac9fec29c90b7c.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/8a/ -rw-r--r-- root/root 883652 2018-10-19 07:10 ./usr/lib/debug/.build-id/8a/34fff691241f0f36a0db5eb0e0eddacc258565.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/9f/ -rw-r--r-- root/root 1109300 2018-10-19 07:10 ./usr/lib/debug/.build-id/9f/7d831e627b0ca73d763cce01c42fb2a926ea2f.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/a4/ -rw-r--r-- root/root 881016 2018-10-19 07:10 ./usr/lib/debug/.build-id/a4/be4d8978089955d0a5178cd0b5b2ab9bd27193.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/aa/ -rw-r--r-- root/root 1079764 2018-10-19 07:10 ./usr/lib/debug/.build-id/aa/e76a24b13dcc865af9d93272fd9eb02c0eea8b.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/b1/ -rw-r--r-- root/root 927928 2018-10-19 07:10 ./usr/lib/debug/.build-id/b1/96550e364978ffdf95efedd4d85227801b7d32.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/b4/ -rw-r--r-- root/root 885476 2018-10-19 07:10 ./usr/lib/debug/.build-id/b4/d9edf4d4cf3680377b4ae4350d0144491a44a9.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/b7/ -rw-r--r-- root/root 916880 2018-10-19 07:10 ./usr/lib/debug/.build-id/b7/61ab19f2d4ca838e2cd503f5a147e47da2ac21.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/bc/ -rw-r--r-- root/root 10392 2018-10-19 07:10 ./usr/lib/debug/.build-id/bc/4a6c90616a0e734a1160eec41038a8801362b5.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/c8/ -rw-r--r-- root/root 879636 2018-10-19 07:10 ./usr/lib/debug/.build-id/c8/b2ed490b13c06c91959c35218c07d4084e8a7b.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/ca/ -rw-r--r-- root/root 1049844 2018-10-19 07:10 ./usr/lib/debug/.build-id/ca/91ee63554be0a9edb2c7522e683ef68c4697c6.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/cc/ -rw-r--r-- root/root 879044 2018-10-19 07:10 ./usr/lib/debug/.build-id/cc/0a99ebcf29a6e0c6fb42797550465295e465a9.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/d0/ -rw-r--r-- root/root 884212 2018-10-19 07:10 ./usr/lib/debug/.build-id/d0/2f5c5a92c11ae0736eee5785f2985fff50f419.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/da/ -rw-r--r-- root/root 881604 2018-10-19 07:10 ./usr/lib/debug/.build-id/da/96b3d64bdd2bd0105bdd9d877467de04a5597c.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/db/ -rw-r--r-- root/root 909816 2018-10-19 07:10 ./usr/lib/debug/.build-id/db/602ec9ed40575a95dc7d8748ce0a0c153e9451.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/dc/ -rw-r--r-- root/root 918996 2018-10-19 07:10 ./usr/lib/debug/.build-id/dc/b23ed6f3917c8da6b17870b2e34e7a5b69d745.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/f1/ -rw-r--r-- root/root 6588 2018-10-19 07:10 ./usr/lib/debug/.build-id/f1/7776b042a57c81db618a2ce9a9455e70a3d458.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/f3/ -rw-r--r-- root/root 1055068 2018-10-19 07:10 ./usr/lib/debug/.build-id/f3/3fbe3105ee0356ef7e9d1a2b63f62eac63caa4.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/f6/ -rw-r--r-- root/root 911180 2018-10-19 07:10 ./usr/lib/debug/.build-id/f6/0569020dd717768a2f5f04c87fe9fa3885371b.debug -rw-r--r-- root/root 909432 2018-10-19 07:10 ./usr/lib/debug/.build-id/f6/6f3f693c18e86e1e41fdbef788b44694e38749.debug -rw-r--r-- root/root 927804 2018-10-19 07:10 ./usr/lib/debug/.build-id/f6/7a921957b79c52caff8c0ebc0057942aadd329.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/lib/debug/.build-id/f7/ -rw-r--r-- root/root 908768 2018-10-19 07:10 ./usr/lib/debug/.build-id/f7/85a3edc60ca1a9b500813014eb17a29b57290d.debug drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-10-19 07:10 ./usr/share/doc/phast-dbgsym -> phast phast_1.5+dfsg-1_armhf.deb -------------------------- new Debian package, version 2.0. size 1231628 bytes: control archive=4744 bytes. 1134 bytes, 22 lines control 12208 bytes, 165 lines md5sums Package: phast Version: 1.5+dfsg-1 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 17376 Depends: libblas3 | libblas.so.3, libc6 (>= 2.23), liblapack3 | liblapack.so.3, libpcre3, libtmglib3 Section: science Priority: optional Homepage: http://compgen.cshl.edu/phast/ Description: phylogenetic analysis with space/time models PHAST is a software package for comparative and evolutionary genomics. It consists of about half a dozen major programs, plus more than a dozen utilities for manipulating sequence alignments, phylogenetic trees, and genomic annotations. For the most part, PHAST focuses on two kinds of applications: the identification of novel functional elements, including protein-coding exons and evolutionarily conserved sequences; and statistical phylogenetic modeling, including estimation of model parameters, detection of signatures of selection, and reconstruction of ancestral sequences. . PHAST does not support phylogeny reconstruction or sequence alignment, and it is designed for use with DNA sequences only (see Comparison). drwxr-xr-x root/root 0 2018-10-19 07:10 ./ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/bin/ -rwxr-xr-x root/root 353848 2018-10-19 07:10 ./usr/bin/all_dists -rwxr-xr-x root/root 355560 2018-10-19 07:10 ./usr/bin/base_evolve -rwxr-xr-x root/root 353784 2018-10-19 07:10 ./usr/bin/chooseLines -rwxr-xr-x root/root 372672 2018-10-19 07:10 ./usr/bin/clean_genes -rwxr-xr-x root/root 355536 2018-10-19 07:10 ./usr/bin/consEntropy -rwxr-xr-x root/root 357880 2018-10-19 07:10 ./usr/bin/convert_coords -rwxr-xr-x root/root 361976 2018-10-19 07:10 ./usr/bin/display_rate_matrix -rwxr-xr-x root/root 419840 2018-10-19 07:10 ./usr/bin/dless -rwxr-xr-x root/root 449688 2018-10-19 07:10 ./usr/bin/dlessP -rwxr-xr-x root/root 5540 2018-10-19 07:10 ./usr/bin/draw_tree -rwxr-xr-x root/root 357880 2018-10-19 07:10 ./usr/bin/eval_predictions -rwxr-xr-x root/root 380456 2018-10-19 07:10 ./usr/bin/exoniphy -rwxr-xr-x root/root 357880 2018-10-19 07:10 ./usr/bin/hmm_train -rwxr-xr-x root/root 357880 2018-10-19 07:10 ./usr/bin/hmm_tweak -rwxr-xr-x root/root 353784 2018-10-19 07:10 ./usr/bin/hmm_view -rwxr-xr-x root/root 355664 2018-10-19 07:10 ./usr/bin/indelFit -rwxr-xr-x root/root 355544 2018-10-19 07:10 ./usr/bin/indelHistory -rwxr-xr-x root/root 374600 2018-10-19 07:10 ./usr/bin/maf_parse -rwxr-xr-x root/root 354912 2018-10-19 07:10 ./usr/bin/makeHKY -rwxr-xr-x root/root 354200 2018-10-19 07:10 ./usr/bin/modFreqs -rwxr-xr-x root/root 354944 2018-10-19 07:10 ./usr/bin/msa_diff -rwxr-xr-x root/root 366520 2018-10-19 07:10 ./usr/bin/msa_split -rwxr-xr-x root/root 370776 2018-10-19 07:10 ./usr/bin/msa_view -rwxr-xr-x root/root 367408 2018-10-19 07:10 ./usr/bin/pbsDecode -rwxr-xr-x root/root 367296 2018-10-19 07:10 ./usr/bin/pbsEncode -rwxr-xr-x root/root 370312 2018-10-19 07:10 ./usr/bin/pbsScoreMatrix -rwxr-xr-x root/root 372048 2018-10-19 07:10 ./usr/bin/pbsTrain -rwxr-xr-x root/root 6492 2018-10-19 07:10 ./usr/bin/phast -rwxr-xr-x root/root 442136 2018-10-19 07:10 ./usr/bin/phastBias -rwxr-xr-x root/root 441584 2018-10-19 07:10 ./usr/bin/phastCons -rwxr-xr-x root/root 357880 2018-10-19 07:10 ./usr/bin/phastMotif -rwxr-xr-x root/root 376272 2018-10-19 07:10 ./usr/bin/phastOdds -rwxr-xr-x root/root 364896 2018-10-19 07:10 ./usr/bin/phyloBoot -rwxr-xr-x root/root 433944 2018-10-19 07:10 ./usr/bin/phyloFit -rwxr-xr-x root/root 451472 2018-10-19 07:10 ./usr/bin/phyloP -rwxr-xr-x root/root 373840 2018-10-19 07:10 ./usr/bin/prequel -rwxr-xr-x root/root 358120 2018-10-19 07:10 ./usr/bin/refeature -rwxr-xr-x root/root 353816 2018-10-19 07:10 ./usr/bin/stringiphy -rwxr-xr-x root/root 359224 2018-10-19 07:10 ./usr/bin/treeGen -rwxr-xr-x root/root 362296 2018-10-19 07:10 ./usr/bin/tree_doctor drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/doc/phast/ -rw-r--r-- root/root 282 2018-10-19 07:10 ./usr/share/doc/phast/changelog.Debian.gz -rw-r--r-- root/root 2044 2018-10-19 07:10 ./usr/share/doc/phast/copyright drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/man/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/man/man1/ -rw-r--r-- root/root 543 2018-10-19 07:10 ./usr/share/man/man1/all_dists.1.gz -rw-r--r-- root/root 826 2018-10-19 07:10 ./usr/share/man/man1/base_evolve.1.gz -rw-r--r-- root/root 291 2018-10-19 07:10 ./usr/share/man/man1/chooseLines.1.gz -rw-r--r-- root/root 2334 2018-10-19 07:10 ./usr/share/man/man1/clean_genes.1.gz -rw-r--r-- root/root 874 2018-10-19 07:10 ./usr/share/man/man1/consEntropy.1.gz -rw-r--r-- root/root 694 2018-10-19 07:10 ./usr/share/man/man1/convert_coords.1.gz -rw-r--r-- root/root 1323 2018-10-19 07:10 ./usr/share/man/man1/display_rate_matrix.1.gz -rw-r--r-- root/root 1729 2018-10-19 07:10 ./usr/share/man/man1/dless.1.gz -rw-r--r-- root/root 801 2018-10-19 07:10 ./usr/share/man/man1/dlessP.1.gz -rw-r--r-- root/root 427 2018-10-19 07:10 ./usr/share/man/man1/draw_tree.1.gz -rw-r--r-- root/root 1131 2018-10-19 07:10 ./usr/share/man/man1/eval_predictions.1.gz -rw-r--r-- root/root 3573 2018-10-19 07:10 ./usr/share/man/man1/exoniphy.1.gz -rw-r--r-- root/root 1209 2018-10-19 07:10 ./usr/share/man/man1/hmm_train.1.gz -rw-r--r-- root/root 979 2018-10-19 07:10 ./usr/share/man/man1/hmm_tweak.1.gz -rw-r--r-- root/root 575 2018-10-19 07:10 ./usr/share/man/man1/hmm_view.1.gz -rw-r--r-- root/root 818 2018-10-19 07:10 ./usr/share/man/man1/indelFit.1.gz -rw-r--r-- root/root 823 2018-10-19 07:10 ./usr/share/man/man1/indelHistory.1.gz -rw-r--r-- root/root 2343 2018-10-19 07:10 ./usr/share/man/man1/maf_parse.1.gz -rw-r--r-- root/root 575 2018-10-19 07:10 ./usr/share/man/man1/makeHKY.1.gz -rw-r--r-- root/root 283 2018-10-19 07:10 ./usr/share/man/man1/modFreqs.1.gz -rw-r--r-- root/root 520 2018-10-19 07:10 ./usr/share/man/man1/msa_diff.1.gz -rw-r--r-- root/root 3107 2018-10-19 07:10 ./usr/share/man/man1/msa_split.1.gz -rw-r--r-- root/root 5136 2018-10-19 07:10 ./usr/share/man/man1/msa_view.1.gz -rw-r--r-- root/root 575 2018-10-19 07:10 ./usr/share/man/man1/pbsDecode.1.gz -rw-r--r-- root/root 590 2018-10-19 07:10 ./usr/share/man/man1/pbsEncode.1.gz -rw-r--r-- root/root 1523 2018-10-19 07:10 ./usr/share/man/man1/pbsScoreMatrix.1.gz -rw-r--r-- root/root 2347 2018-10-19 07:10 ./usr/share/man/man1/pbsTrain.1.gz -rw-r--r-- root/root 491 2018-10-19 07:10 ./usr/share/man/man1/phast.1.gz -rw-r--r-- root/root 2226 2018-10-19 07:10 ./usr/share/man/man1/phastBias.1.gz -rw-r--r-- root/root 6766 2018-10-19 07:10 ./usr/share/man/man1/phastCons.1.gz -rw-r--r-- root/root 1891 2018-10-19 07:10 ./usr/share/man/man1/phastMotif.1.gz -rw-r--r-- root/root 2014 2018-10-19 07:10 ./usr/share/man/man1/phastOdds.1.gz -rw-r--r-- root/root 2390 2018-10-19 07:10 ./usr/share/man/man1/phyloBoot.1.gz -rw-r--r-- root/root 8438 2018-10-19 07:10 ./usr/share/man/man1/phyloFit.1.gz -rw-r--r-- root/root 5007 2018-10-19 07:10 ./usr/share/man/man1/phyloP.1.gz -rw-r--r-- root/root 2790 2018-10-19 07:10 ./usr/share/man/man1/prequel.1.gz -rw-r--r-- root/root 1533 2018-10-19 07:10 ./usr/share/man/man1/refeature.1.gz -rw-r--r-- root/root 349 2018-10-19 07:10 ./usr/share/man/man1/stringiphy.1.gz -rw-r--r-- root/root 702 2018-10-19 07:10 ./usr/share/man/man1/treeGen.1.gz -rw-r--r-- root/root 2372 2018-10-19 07:10 ./usr/share/man/man1/tree_doctor.1.gz drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/phast/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/phast/data/ drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/ -rw-r--r-- root/root 244 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/default-no-cns.cm -rw-r--r-- root/root 271 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/default.cm drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/ -rw-r--r-- root/root 629 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/cftr25_hybrid.nh -rw-r--r-- root/root 680372 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/default-indels-no-cns.hmm -rw-r--r-- root/root 732444 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/default-indels.hmm -rw-r--r-- root/root 14434 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/default-no-cns.hmm -rw-r--r-- root/root 15378 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/default.hmm -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.3'splice-1.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.3'splice-2.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.3'splice-3.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.3'splice-4.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.3'splice-5.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.3'splice-6.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.5'splice-1.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.5'splice-2.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.5'splice-3.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.5'splice-4.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.5'splice-5.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.5'splice-6.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.cds3'ss.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.cds5'ss-1.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.cds5'ss-2.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.cds5'ss-3.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.prestart-1.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.prestart-2.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.prestart-3.mod -rw-r--r-- root/root 392 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.prestart-4.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.start-1.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.start-2.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.start-3.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.stop-1.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.stop-2.mod -rw-r--r-- root/root 363 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/hky.stop-3.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-1.gc1.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-1.gc2.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-1.gc3.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-1.gc4.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-1.gc5.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-1.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-2.gc1.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-2.gc2.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-2.gc3.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-2.gc4.mod -rw-r--r-- root/root 62237 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-2.gc5.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-2.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-3.gc1.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-3.gc2.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-3.gc3.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-3.gc4.mod -rw-r--r-- root/root 62237 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-3.gc5.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cds-3.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cns.gc1.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cns.gc2.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cns.gc3.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cns.gc4.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cns.gc5.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.cns.mod -rw-r--r-- root/root 49950 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.ncns.gc1.mod -rw-r--r-- root/root 49950 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.ncns.gc2.mod -rw-r--r-- root/root 49950 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.ncns.gc3.mod -rw-r--r-- root/root 49950 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.ncns.gc4.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.ncns.gc5.mod -rw-r--r-- root/root 49950 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.ncns.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.noncoding.gc1.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.noncoding.gc2.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.noncoding.gc3.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.noncoding.gc4.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.noncoding.gc5.mod -rw-r--r-- root/root 49949 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/mammals/r3.noncoding.mod -rw-r--r-- root/root 529 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models -rw-r--r-- root/root 549 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-gc1 -rw-r--r-- root/root 549 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-gc2 -rw-r--r-- root/root 549 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-gc3 -rw-r--r-- root/root 549 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-gc4 -rw-r--r-- root/root 549 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-gc5 -rw-r--r-- root/root 523 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-no-cns -rw-r--r-- root/root 539 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-no-cns-gc1 -rw-r--r-- root/root 539 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-no-cns-gc2 -rw-r--r-- root/root 539 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-no-cns-gc3 -rw-r--r-- root/root 539 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-no-cns-gc4 -rw-r--r-- root/root 539 2018-10-19 07:10 ./usr/share/phast/data/exoniphy/models-no-cns-gc5 drwxr-xr-x root/root 0 2018-10-19 07:10 ./usr/share/phast/data/phastCons/ -rw-r--r-- root/root 103302 2018-10-19 07:10 ./usr/share/phast/data/phastCons/simple-coding-indels.hmm -rw-r--r-- root/root 584 2018-10-19 07:10 ./usr/share/phast/data/phastCons/simple-coding.hmm +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 214028 Build-Time: 103 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 23 Job: phast_1.5+dfsg-1 Lintian: pass Machine Architecture: amd64 Package: phast Package-Time: 137 Source-Version: 1.5+dfsg-1 Space: 214028 Status: successful Version: 1.5+dfsg-1 -------------------------------------------------------------------------------- Finished at 2019-02-08T08:56:35Z Build needed 00:02:17, 214028k disk space